One-to-n alignments

Command: compare-matrices  -v 1 -format transfac -file $RSAT/public_html/tmp/www-data/2026/01/05/peak-motifs.2026-01-05.052000_2026-01-05.052000_2qIqyX/results/discovered_motifs/peak-motifs_motifs_discovered.tf -distinct -mode matches -strand DR -uth offset_rank 1 -lth w 5 -lth Wr 0.3 -lth cor 0.7 -lth Ncor 0.4 -return matrix_name,matrix_id,cor,Ncor,width,strand,offset,alignments_1ton -sort Ncor -quick -o $RSAT/public_html/tmp/www-data/2026/01/05/peak-motifs.2026-01-05.052000_2026-01-05.052000_2qIqyX/results/discovered_motifs/peak-motifs_motifs_disco_compa.tab

One-to-n matrix alignment; reference matrix: positions_6nt_m1_shift1 ; 18 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
positions_6nt_m1_shift1 (positions_6nt_m1)
; positions_6nt_m1; m=0 (reference); ncol1=17; shift=1; ncol=18; -ycyrGACATGCCCagrc ; Alignment reference a 0 126 136 150 231 81 622 4 698 32 7 19 18 42 444 101 310 160 c 0 323 337 218 43 48 21 769 19 14 6 658 726 608 67 153 111 417 g 0 91 181 144 430 634 139 17 14 19 778 10 15 21 193 475 297 135 t 0 255 141 283 91 32 13 5 64 730 4 108 36 124 91 66 77 83

positions_6nt_m1_shift1 (positions_6nt_m1)
; positions_6nt_m1 versus positions_6nt_m1; m=1/17; ncol2=17; w=0; offset=0; strand=D; shift=1; score= 1; -ycyrGACATGCCCagrc ; cor=; Ncor= a 0 126 136 150 231 81 622 4 698 32 7 19 18 42 444 101 310 160 c 0 323 337 218 43 48 21 769 19 14 6 658 726 608 67 153 111 417 g 0 91 181 144 430 634 139 17 14 19 778 10 15 21 193 475 297 135 t 0 255 141 283 91 32 13 5 64 730 4 108 36 124 91 66 77 83

positions_7nt_m1_shift1 (positions_7nt_m1)
; positions_6nt_m1 versus positions_7nt_m1; m=2/17; ncol2=17; w=0; offset=0; strand=D; shift=1; score=0.965884; -yccaGACATGCCCagrc ; cor=; Ncor= a 0 111 127 107 449 74 578 8 611 38 9 17 43 27 447 97 304 157 c 0 310 303 386 41 70 12 686 35 11 5 592 620 584 53 143 99 365 g 0 80 151 112 142 537 115 13 14 15 695 5 18 13 133 401 231 117 t 0 213 133 109 82 33 9 7 54 650 5 100 33 90 81 73 80 75

positions_7nt_m2_rc_shift2 (positions_7nt_m2_rc)
; positions_6nt_m1 versus positions_7nt_m2_rc; m=3/17; ncol2=16; w=0; offset=1; strand=R; shift=2; score=0.93908; --cyrGACATGCCCagrc ; cor=; Ncor= a 0 0 140 169 232 107 656 4 704 40 10 12 29 38 497 106 315 167 c 0 0 333 240 44 67 19 788 33 18 6 699 740 668 70 166 110 419 g 0 0 198 182 452 612 135 19 17 20 799 12 23 18 169 475 302 149 t 0 0 151 231 94 36 12 11 68 744 7 99 30 98 86 75 95 87

positions_6nt_m3_shift0 (positions_6nt_m3)
; positions_6nt_m1 versus positions_6nt_m3; m=4/17; ncol2=18; w=-1; offset=-1; strand=D; shift=0; score=0.929305; gyccrGACATGCCCagrc ; cor=; Ncor= a 92 120 129 132 443 72 682 10 746 51 10 15 44 44 481 120 344 186 c 187 394 435 399 54 56 19 837 36 17 8 728 769 662 82 175 117 430 g 472 91 160 149 270 714 157 14 19 23 847 10 23 27 196 504 312 159 t 119 265 146 190 103 28 12 9 69 779 5 117 34 137 111 71 97 95

positions_7nt_m5_shift0 (positions_7nt_m5)
; positions_6nt_m1 versus positions_7nt_m5; m=5/17; ncol2=18; w=-1; offset=-1; strand=D; shift=0; score=0.86862; gyctGGGCATGCCCagrc ; cor=; Ncor= a 62 46 57 49 61 23 106 4 449 20 2 6 30 16 303 44 179 83 c 94 212 308 114 14 15 22 489 22 12 8 370 436 412 38 94 66 265 g 264 66 94 38 412 435 369 8 12 22 489 22 15 14 114 308 212 93 t 83 179 44 302 16 30 6 2 20 449 4 105 22 61 48 57 46 62

positions_6nt_m4_shift1 (positions_6nt_m4)
; positions_6nt_m1 versus positions_6nt_m4; m=6/17; ncol2=16; w=0; offset=0; strand=D; shift=1; score=0.862943; -ycygGACATGTCcrgr- ; cor=; Ncor= a 0 97 140 122 176 66 547 13 695 31 7 15 32 69 327 139 278 0 c 0 272 302 192 31 20 10 714 7 12 11 173 627 469 105 163 98 0 g 0 98 164 105 469 627 173 11 12 7 713 10 20 31 192 302 272 0 t 0 278 139 326 69 32 15 7 31 695 14 547 66 176 121 141 97 0

positions_6nt_m5_rc_shift1 (positions_6nt_m5_rc)
; positions_6nt_m1 versus positions_6nt_m5_rc; m=7/17; ncol2=15; w=0; offset=0; strand=R; shift=1; score=0.861126; -yctrGACATGCCyrg-- ; cor=; Ncor= a 0 92 130 131 204 63 577 6 677 23 3 17 14 68 271 142 0 0 c 0 309 316 172 35 36 13 714 14 17 8 598 685 340 87 172 0 0 g 0 76 154 126 441 613 129 8 14 18 720 9 10 37 261 329 0 0 t 0 257 134 305 54 22 15 6 29 676 3 110 25 289 115 91 0 0

positions_6nt_m2_shift3 (positions_6nt_m2)
; positions_6nt_m1 versus positions_6nt_m2; m=8/17; ncol2=15; w=0; offset=2; strand=D; shift=3; score=0.858211; ---crrACATGCCCagrc ; cor=; Ncor= a 0 0 0 187 285 296 736 7 734 37 16 21 45 40 500 88 316 181 c 0 0 0 255 121 111 22 812 36 13 6 725 763 671 68 127 136 454 g 0 0 0 197 310 368 75 18 21 23 809 7 17 12 180 552 296 123 t 0 0 0 207 130 71 13 9 55 773 15 93 21 123 98 79 98 88

positions_7nt_m4_rc_shift1 (positions_7nt_m4_rc)
; positions_6nt_m1 versus positions_7nt_m4_rc; m=9/17; ncol2=15; w=0; offset=0; strand=R; shift=1; score=0.813271; -yccAGACATGCCyrg-- ; cor=; Ncor= a 0 74 111 94 429 55 522 8 564 25 10 8 20 51 198 118 0 0 c 0 296 280 372 30 37 7 593 14 7 12 507 553 255 82 146 0 0 g 0 55 84 64 112 507 79 6 14 13 587 7 10 22 237 265 0 0 t 0 191 141 86 45 17 8 9 24 571 7 94 33 288 99 87 0 0

oligos_7nt_mkv4_m1_shift2 (oligos_7nt_mkv4_m1)
; positions_6nt_m1 versus oligos_7nt_mkv4_m1; m=10/17; ncol2=19; w=0; offset=1; strand=D; shift=2; score=0.774791; --skgGACATGCCCAGrC ; cor=; Ncor= a 0 0 106 123 130 97 429 7 483 42 6 7 21 18 416 35 171 49 c 0 0 196 138 31 41 16 557 24 16 4 466 531 500 17 31 34 463 g 0 0 185 157 356 416 126 15 20 23 572 6 8 11 116 496 361 44 t 0 0 98 167 68 31 14 6 58 504 3 106 25 56 36 23 19 29

oligos_6nt_mkv3_m3_rc_shift2 (oligos_6nt_mkv3_m3_rc)
; positions_6nt_m1 versus oligos_6nt_mkv3_m3_rc; m=11/17; ncol2=14; w=0; offset=1; strand=R; shift=2; score=0.738389; --cyrGACATGTCyrg-- ; cor=; Ncor= a 0 0 145 169 237 64 626 10 750 38 5 14 26 105 243 175 0 0 c 0 0 323 260 42 25 8 790 8 19 10 167 700 431 143 173 0 0 g 0 0 172 143 431 700 167 10 19 8 791 8 25 42 259 323 0 0 t 0 0 175 243 105 26 14 5 38 750 9 626 64 237 170 144 0 0

positions_7nt_m3_shift1 (positions_7nt_m3)
; positions_6nt_m1 versus positions_7nt_m3; m=12/17; ncol2=16; w=0; offset=0; strand=D; shift=1; score=0.727513; -yyCAGACATGTCTGrr- ; cor=; Ncor= a 0 35 58 37 231 15 234 7 289 15 2 6 11 22 38 82 124 0 c 0 120 124 221 11 7 5 306 8 4 1 71 283 52 20 52 37 0 g 0 37 52 20 52 283 71 1 4 8 306 5 7 11 221 124 120 0 t 0 124 82 38 22 11 6 2 15 289 7 234 15 231 37 58 35 0

oligos_7nt_mkv4_m5_shift3 (oligos_7nt_mkv4_m5)
; positions_6nt_m1 versus oligos_7nt_mkv4_m5; m=13/17; ncol2=12; w=0; offset=2; strand=D; shift=3; score=0.641704; ---srGACwTGCCyr--- ; cor=; Ncor= a 0 0 0 117 200 23 523 5 200 15 5 5 15 89 208 0 0 0 c 0 0 0 189 43 11 12 577 26 10 11 528 549 272 84 0 0 0 g 0 0 0 178 229 555 45 14 16 12 573 14 14 34 194 0 0 0 t 0 0 0 113 125 8 17 1 355 560 8 50 19 202 111 0 0 0

oligos_6nt_mkv3_m1_shift2 (oligos_6nt_mkv3_m1)
; positions_6nt_m1 versus oligos_6nt_mkv3_m1; m=14/17; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.598273; --skrGrCATGyCCrGrC ; cor=; Ncor= a 0 0 110 103 155 91 354 5 435 53 5 15 25 27 331 33 196 3 c 0 0 149 139 33 22 15 542 20 8 2 387 508 390 16 7 6 565 g 0 0 202 163 304 416 178 9 17 22 563 4 5 13 192 513 358 3 t 0 0 112 168 81 44 26 17 101 490 3 167 35 143 34 20 13 2

oligos_7nt_mkv4_m3_rc_shift3 (oligos_7nt_mkv4_m3_rc)
; positions_6nt_m1 versus oligos_7nt_mkv4_m3_rc; m=15/17; ncol2=12; w=0; offset=2; strand=R; shift=3; score=0.555901; ---brGACTTGTCyr--- ; cor=; Ncor= a 0 0 0 74 145 19 391 4 105 3 4 5 17 64 131 0 0 0 c 0 0 0 132 27 7 12 442 8 9 11 79 389 177 75 0 0 0 g 0 0 0 126 182 415 40 1 22 6 429 14 19 38 148 0 0 0 t 0 0 0 119 97 10 8 4 316 433 7 353 26 172 97 0 0 0

oligos_7nt_mkv4_m4_shift5 (oligos_7nt_mkv4_m4)
; positions_6nt_m1 versus oligos_7nt_mkv4_m4; m=16/17; ncol2=11; w=0; offset=4; strand=D; shift=5; score=0.553022; -----grCAaGCCCrs-- ; cor=; Ncor= a 0 0 0 0 0 92 199 5 420 302 5 7 6 4 148 59 0 0 c 0 0 0 0 0 91 100 447 33 35 11 443 450 461 102 137 0 0 g 0 0 0 0 0 211 127 17 17 23 451 10 16 5 144 222 0 0 t 0 0 0 0 0 83 51 8 7 117 10 17 5 7 83 59 0 0

oligos_6nt_mkv3_m2_rc_shift3 (oligos_6nt_mkv3_m2_rc)
; positions_6nt_m1 versus oligos_6nt_mkv3_m2_rc; m=17/17; ncol2=12; w=0; offset=2; strand=R; shift=3; score=0.54566; ---srGACTTGTcyd--- ; cor=; Ncor= a 0 0 0 111 185 22 548 9 138 5 5 24 91 104 159 0 0 0 c 0 0 0 172 54 6 6 560 15 9 12 116 350 209 108 0 0 0 g 0 0 0 157 202 535 16 7 24 11 557 44 59 70 168 0 0 0 t 0 0 0 141 140 18 11 5 404 556 7 397 81 198 146 0 0 0

One-to-n matrix alignment; reference matrix: positions_7nt_m1_shift2 ; 19 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
positions_7nt_m1_shift2 (positions_7nt_m1)
; positions_7nt_m1; m=0 (reference); ncol1=17; shift=2; ncol=19; --yccaGACATGCCCagrc ; Alignment reference a 0 0 111 127 107 449 74 578 8 611 38 9 17 43 27 447 97 304 157 c 0 0 310 303 386 41 70 12 686 35 11 5 592 620 584 53 143 99 365 g 0 0 80 151 112 142 537 115 13 14 15 695 5 18 13 133 401 231 117 t 0 0 213 133 109 82 33 9 7 54 650 5 100 33 90 81 73 80 75

positions_7nt_m1_shift2 (positions_7nt_m1)
; positions_7nt_m1 versus positions_7nt_m1; m=1/18; ncol2=17; w=0; offset=0; strand=D; shift=2; score= 1; --yccaGACATGCCCagrc ; cor=; Ncor= a 0 0 111 127 107 449 74 578 8 611 38 9 17 43 27 447 97 304 157 c 0 0 310 303 386 41 70 12 686 35 11 5 592 620 584 53 143 99 365 g 0 0 80 151 112 142 537 115 13 14 15 695 5 18 13 133 401 231 117 t 0 0 213 133 109 82 33 9 7 54 650 5 100 33 90 81 73 80 75

positions_6nt_m1_shift2 (positions_6nt_m1)
; positions_7nt_m1 versus positions_6nt_m1; m=2/18; ncol2=17; w=0; offset=0; strand=D; shift=2; score=0.965884; --ycyrGACATGCCCagrc ; cor=; Ncor= a 0 0 126 136 150 231 81 622 4 698 32 7 19 18 42 444 101 310 160 c 0 0 323 337 218 43 48 21 769 19 14 6 658 726 608 67 153 111 417 g 0 0 91 181 144 430 634 139 17 14 19 778 10 15 21 193 475 297 135 t 0 0 255 141 283 91 32 13 5 64 730 4 108 36 124 91 66 77 83

positions_6nt_m3_shift1 (positions_6nt_m3)
; positions_7nt_m1 versus positions_6nt_m3; m=3/18; ncol2=18; w=-1; offset=-1; strand=D; shift=1; score=0.938416; -gyccrGACATGCCCagrc ; cor=; Ncor= a 0 92 120 129 132 443 72 682 10 746 51 10 15 44 44 481 120 344 186 c 0 187 394 435 399 54 56 19 837 36 17 8 728 769 662 82 175 117 430 g 0 472 91 160 149 270 714 157 14 19 23 847 10 23 27 196 504 312 159 t 0 119 265 146 190 103 28 12 9 69 779 5 117 34 137 111 71 97 95

positions_7nt_m2_rc_shift3 (positions_7nt_m2_rc)
; positions_7nt_m1 versus positions_7nt_m2_rc; m=4/18; ncol2=16; w=0; offset=1; strand=R; shift=3; score=0.911572; ---cyrGACATGCCCagrc ; cor=; Ncor= a 0 0 0 140 169 232 107 656 4 704 40 10 12 29 38 497 106 315 167 c 0 0 0 333 240 44 67 19 788 33 18 6 699 740 668 70 166 110 419 g 0 0 0 198 182 452 612 135 19 17 20 799 12 23 18 169 475 302 149 t 0 0 0 151 231 94 36 12 11 68 744 7 99 30 98 86 75 95 87

positions_6nt_m2_shift4 (positions_6nt_m2)
; positions_7nt_m1 versus positions_6nt_m2; m=5/18; ncol2=15; w=0; offset=2; strand=D; shift=4; score=0.849613; ----crrACATGCCCagrc ; cor=; Ncor= a 0 0 0 0 187 285 296 736 7 734 37 16 21 45 40 500 88 316 181 c 0 0 0 0 255 121 111 22 812 36 13 6 725 763 671 68 127 136 454 g 0 0 0 0 197 310 368 75 18 21 23 809 7 17 12 180 552 296 123 t 0 0 0 0 207 130 71 13 9 55 773 15 93 21 123 98 79 98 88

positions_7nt_m4_rc_shift2 (positions_7nt_m4_rc)
; positions_7nt_m1 versus positions_7nt_m4_rc; m=6/18; ncol2=15; w=0; offset=0; strand=R; shift=2; score=0.842085; --yccAGACATGCCyrg-- ; cor=; Ncor= a 0 0 74 111 94 429 55 522 8 564 25 10 8 20 51 198 118 0 0 c 0 0 296 280 372 30 37 7 593 14 7 12 507 553 255 82 146 0 0 g 0 0 55 84 64 112 507 79 6 14 13 587 7 10 22 237 265 0 0 t 0 0 191 141 86 45 17 8 9 24 571 7 94 33 288 99 87 0 0

positions_6nt_m5_rc_shift2 (positions_6nt_m5_rc)
; positions_7nt_m1 versus positions_6nt_m5_rc; m=7/18; ncol2=15; w=0; offset=0; strand=R; shift=2; score=0.815553; --yctrGACATGCCyrg-- ; cor=; Ncor= a 0 0 92 130 131 204 63 577 6 677 23 3 17 14 68 271 142 0 0 c 0 0 309 316 172 35 36 13 714 14 17 8 598 685 340 87 172 0 0 g 0 0 76 154 126 441 613 129 8 14 18 720 9 10 37 261 329 0 0 t 0 0 257 134 305 54 22 15 6 29 676 3 110 25 289 115 91 0 0

positions_6nt_m4_shift2 (positions_6nt_m4)
; positions_7nt_m1 versus positions_6nt_m4; m=8/18; ncol2=16; w=0; offset=0; strand=D; shift=2; score=0.815107; --ycygGACATGTCcrgr- ; cor=; Ncor= a 0 0 97 140 122 176 66 547 13 695 31 7 15 32 69 327 139 278 0 c 0 0 272 302 192 31 20 10 714 7 12 11 173 627 469 105 163 98 0 g 0 0 98 164 105 469 627 173 11 12 7 713 10 20 31 192 302 272 0 t 0 0 278 139 326 69 32 15 7 31 695 14 547 66 176 121 141 97 0

positions_7nt_m5_shift1 (positions_7nt_m5)
; positions_7nt_m1 versus positions_7nt_m5; m=9/18; ncol2=18; w=-1; offset=-1; strand=D; shift=1; score=0.800625; -gyctGGGCATGCCCagrc ; cor=; Ncor= a 0 62 46 57 49 61 23 106 4 449 20 2 6 30 16 303 44 179 83 c 0 94 212 308 114 14 15 22 489 22 12 8 370 436 412 38 94 66 265 g 0 264 66 94 38 412 435 369 8 12 22 489 22 15 14 114 308 212 93 t 0 83 179 44 302 16 30 6 2 20 449 4 105 22 61 48 57 46 62

positions_7nt_m3_shift2 (positions_7nt_m3)
; positions_7nt_m1 versus positions_7nt_m3; m=10/18; ncol2=16; w=0; offset=0; strand=D; shift=2; score=0.755292; --yyCAGACATGTCTGrr- ; cor=; Ncor= a 0 0 35 58 37 231 15 234 7 289 15 2 6 11 22 38 82 124 0 c 0 0 120 124 221 11 7 5 306 8 4 1 71 283 52 20 52 37 0 g 0 0 37 52 20 52 283 71 1 4 8 306 5 7 11 221 124 120 0 t 0 0 124 82 38 22 11 6 2 15 289 7 234 15 231 37 58 35 0

oligos_7nt_mkv4_m1_shift3 (oligos_7nt_mkv4_m1)
; positions_7nt_m1 versus oligos_7nt_mkv4_m1; m=11/18; ncol2=19; w=0; offset=1; strand=D; shift=3; score=0.741163; ---skgGACATGCCCAGrC ; cor=; Ncor= a 0 0 0 106 123 130 97 429 7 483 42 6 7 21 18 416 35 171 49 c 0 0 0 196 138 31 41 16 557 24 16 4 466 531 500 17 31 34 463 g 0 0 0 185 157 356 416 126 15 20 23 572 6 8 11 116 496 361 44 t 0 0 0 98 167 68 31 14 6 58 504 3 106 25 56 36 23 19 29

oligos_6nt_mkv3_m3_rc_shift3 (oligos_6nt_mkv3_m3_rc)
; positions_7nt_m1 versus oligos_6nt_mkv3_m3_rc; m=12/18; ncol2=14; w=0; offset=1; strand=R; shift=3; score=0.708195; ---cyrGACATGTCyrg-- ; cor=; Ncor= a 0 0 0 145 169 237 64 626 10 750 38 5 14 26 105 243 175 0 0 c 0 0 0 323 260 42 25 8 790 8 19 10 167 700 431 143 173 0 0 g 0 0 0 172 143 431 700 167 10 19 8 791 8 25 42 259 323 0 0 t 0 0 0 175 243 105 26 14 5 38 750 9 626 64 237 170 144 0 0

oligos_7nt_mkv4_m5_shift4 (oligos_7nt_mkv4_m5)
; positions_7nt_m1 versus oligos_7nt_mkv4_m5; m=13/18; ncol2=12; w=0; offset=2; strand=D; shift=4; score=0.626812; ----srGACwTGCCyr--- ; cor=; Ncor= a 0 0 0 0 117 200 23 523 5 200 15 5 5 15 89 208 0 0 0 c 0 0 0 0 189 43 11 12 577 26 10 11 528 549 272 84 0 0 0 g 0 0 0 0 178 229 555 45 14 16 12 573 14 14 34 194 0 0 0 t 0 0 0 0 113 125 8 17 1 355 560 8 50 19 202 111 0 0 0

oligos_6nt_mkv3_m1_shift3 (oligos_6nt_mkv3_m1)
; positions_7nt_m1 versus oligos_6nt_mkv3_m1; m=14/18; ncol2=24; w=0; offset=1; strand=D; shift=3; score=0.571534; ---skrGrCATGyCCrGrC ; cor=; Ncor= a 0 0 0 110 103 155 91 354 5 435 53 5 15 25 27 331 33 196 3 c 0 0 0 149 139 33 22 15 542 20 8 2 387 508 390 16 7 6 565 g 0 0 0 202 163 304 416 178 9 17 22 563 4 5 13 192 513 358 3 t 0 0 0 112 168 81 44 26 17 101 490 3 167 35 143 34 20 13 2

oligos_7nt_mkv4_m4_shift6 (oligos_7nt_mkv4_m4)
; positions_7nt_m1 versus oligos_7nt_mkv4_m4; m=15/18; ncol2=11; w=0; offset=4; strand=D; shift=6; score=0.553285; ------grCAaGCCCrs-- ; cor=; Ncor= a 0 0 0 0 0 0 92 199 5 420 302 5 7 6 4 148 59 0 0 c 0 0 0 0 0 0 91 100 447 33 35 11 443 450 461 102 137 0 0 g 0 0 0 0 0 0 211 127 17 17 23 451 10 16 5 144 222 0 0 t 0 0 0 0 0 0 83 51 8 7 117 10 17 5 7 83 59 0 0

oligos_7nt_mkv4_m3_rc_shift4 (oligos_7nt_mkv4_m3_rc)
; positions_7nt_m1 versus oligos_7nt_mkv4_m3_rc; m=16/18; ncol2=12; w=0; offset=2; strand=R; shift=4; score=0.536667; ----brGACTTGTCyr--- ; cor=; Ncor= a 0 0 0 0 74 145 19 391 4 105 3 4 5 17 64 131 0 0 0 c 0 0 0 0 132 27 7 12 442 8 9 11 79 389 177 75 0 0 0 g 0 0 0 0 126 182 415 40 1 22 6 429 14 19 38 148 0 0 0 t 0 0 0 0 119 97 10 8 4 316 433 7 353 26 172 97 0 0 0

oligos_6nt_mkv3_m2_rc_shift4 (oligos_6nt_mkv3_m2_rc)
; positions_7nt_m1 versus oligos_6nt_mkv3_m2_rc; m=17/18; ncol2=12; w=0; offset=2; strand=R; shift=4; score=0.532177; ----srGACTTGTcyd--- ; cor=; Ncor= a 0 0 0 0 111 185 22 548 9 138 5 5 24 91 104 159 0 0 0 c 0 0 0 0 172 54 6 6 560 15 9 12 116 350 209 108 0 0 0 g 0 0 0 0 157 202 535 16 7 24 11 557 44 59 70 168 0 0 0 t 0 0 0 0 141 140 18 11 5 404 556 7 397 81 198 146 0 0 0

oligos_7nt_mkv4_m2_shift0 (oligos_7nt_mkv4_m2)
; positions_7nt_m1 versus oligos_7nt_mkv4_m2; m=18/18; ncol2=12; w=-2; offset=-2; strand=D; shift=0; score=0.430169; tgCCCAGACAtg------- ; cor=; Ncor= a 115 78 22 24 13 580 21 494 21 602 145 125 0 0 0 0 0 0 0 c 108 128 556 594 620 9 21 32 586 17 125 80 0 0 0 0 0 0 0 g 99 362 23 6 1 19 595 106 30 7 127 366 0 0 0 0 0 0 0 t 327 81 48 25 15 41 12 17 12 23 252 78 0 0 0 0 0 0 0

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv3_m4_shift0 ; 2 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv3_m4_shift0 (oligos_6nt_mkv3_m4)
; oligos_6nt_mkv3_m4; m=0 (reference); ncol1=12; shift=0; ncol=12; waCAAAGAAAaa ; Alignment reference a 252 231 69 572 542 564 35 508 547 547 220 249 c 86 114 446 13 22 7 55 51 21 16 104 85 g 110 136 47 3 25 18 474 30 24 20 137 140 t 150 117 36 10 9 9 34 9 6 15 137 124

oligos_6nt_mkv3_m4_shift0 (oligos_6nt_mkv3_m4)
; oligos_6nt_mkv3_m4 versus oligos_6nt_mkv3_m4; m=1/1; ncol2=12; w=0; offset=0; strand=D; shift=0; score= 1; waCAAAGAAAaa ; cor=; Ncor= a 252 231 69 572 542 564 35 508 547 547 220 249 c 86 114 446 13 22 7 55 51 21 16 104 85 g 110 136 47 3 25 18 474 30 24 20 137 140 t 150 117 36 10 9 9 34 9 6 15 137 124

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv3_m2_shift11 ; 17 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv3_m2_shift11 (oligos_6nt_mkv3_m2)
; oligos_6nt_mkv3_m2; m=0 (reference); ncol1=12; shift=11; ncol=23; -----------hrgACAAGTCys ; Alignment reference a 0 0 0 0 0 0 0 0 0 0 0 146 198 81 397 7 556 404 5 11 18 140 141 c 0 0 0 0 0 0 0 0 0 0 0 168 70 59 44 557 11 24 7 16 535 202 157 g 0 0 0 0 0 0 0 0 0 0 0 108 209 350 116 12 9 15 560 6 6 54 172 t 0 0 0 0 0 0 0 0 0 0 0 159 104 91 24 5 5 138 9 548 22 185 111

oligos_6nt_mkv3_m2_shift11 (oligos_6nt_mkv3_m2)
; oligos_6nt_mkv3_m2 versus oligos_6nt_mkv3_m2; m=1/16; ncol2=12; w=0; offset=0; strand=D; shift=11; score= 1; -----------hrgACAAGTCys ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 146 198 81 397 7 556 404 5 11 18 140 141 c 0 0 0 0 0 0 0 0 0 0 0 168 70 59 44 557 11 24 7 16 535 202 157 g 0 0 0 0 0 0 0 0 0 0 0 108 209 350 116 12 9 15 560 6 6 54 172 t 0 0 0 0 0 0 0 0 0 0 0 159 104 91 24 5 5 138 9 548 22 185 111

oligos_7nt_mkv4_m3_shift11 (oligos_7nt_mkv4_m3)
; oligos_6nt_mkv3_m2 versus oligos_7nt_mkv4_m3; m=2/16; ncol2=12; w=0; offset=0; strand=D; shift=11; score=0.985996; -----------yrGACAAGTCyv ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 97 172 26 353 7 433 316 4 8 10 97 119 c 0 0 0 0 0 0 0 0 0 0 0 148 38 19 14 429 6 22 1 40 415 182 126 g 0 0 0 0 0 0 0 0 0 0 0 75 177 389 79 11 9 8 442 12 7 27 132 t 0 0 0 0 0 0 0 0 0 0 0 131 64 17 5 4 3 105 4 391 19 145 74

oligos_7nt_mkv4_m5_rc_shift11 (oligos_7nt_mkv4_m5_rc)
; oligos_6nt_mkv3_m2 versus oligos_7nt_mkv4_m5_rc; m=3/16; ncol2=12; w=0; offset=0; strand=R; shift=11; score=0.88449; -----------yrGGCAwGTCys ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 111 202 19 50 8 560 355 1 17 8 125 113 c 0 0 0 0 0 0 0 0 0 0 0 194 34 14 14 573 12 16 14 45 555 229 178 g 0 0 0 0 0 0 0 0 0 0 0 84 272 549 528 11 10 26 577 12 11 43 189 t 0 0 0 0 0 0 0 0 0 0 0 208 89 15 5 5 15 200 5 523 23 200 117

oligos_6nt_mkv3_m3_shift10 (oligos_6nt_mkv3_m3)
; oligos_6nt_mkv3_m2 versus oligos_6nt_mkv3_m3; m=4/16; ncol2=14; w=-1; offset=-1; strand=D; shift=10; score=0.744156; ----------cyrGACATGTCyr ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 144 170 237 64 626 9 750 38 5 14 26 105 243 c 0 0 0 0 0 0 0 0 0 0 323 259 42 25 8 791 8 19 10 167 700 431 143 g 0 0 0 0 0 0 0 0 0 0 173 143 431 700 167 10 19 8 790 8 25 42 260 t 0 0 0 0 0 0 0 0 0 0 175 243 105 26 14 5 38 750 10 626 64 237 169

positions_6nt_m4_shift9 (positions_6nt_m4)
; oligos_6nt_mkv3_m2 versus positions_6nt_m4; m=5/16; ncol2=16; w=-2; offset=-2; strand=D; shift=9; score=0.632837; ---------ycygGACATGTCcr ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 97 140 122 176 66 547 13 695 31 7 15 32 69 327 c 0 0 0 0 0 0 0 0 0 272 302 192 31 20 10 714 7 12 11 173 627 469 105 g 0 0 0 0 0 0 0 0 0 98 164 105 469 627 173 11 12 7 713 10 20 31 192 t 0 0 0 0 0 0 0 0 0 278 139 326 69 32 15 7 31 695 14 547 66 176 121

positions_6nt_m5_shift10 (positions_6nt_m5)
; oligos_6nt_mkv3_m2 versus positions_6nt_m5; m=6/16; ncol2=15; w=-1; offset=-1; strand=D; shift=10; score=0.628507; ----------cyrGGCATGTCya ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 91 115 289 25 110 3 676 29 6 15 22 54 305 c 0 0 0 0 0 0 0 0 0 0 329 261 37 10 9 720 18 14 8 129 613 441 126 g 0 0 0 0 0 0 0 0 0 0 172 87 340 685 598 8 17 14 714 13 36 35 172 t 0 0 0 0 0 0 0 0 0 0 142 271 68 14 17 3 23 677 6 577 63 204 131

positions_7nt_m4_shift10 (positions_7nt_m4)
; oligos_6nt_mkv3_m2 versus positions_7nt_m4; m=7/16; ncol2=15; w=-1; offset=-1; strand=D; shift=10; score=0.619964; ----------cyrGGCATGTCTg ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 87 99 288 33 94 7 571 24 9 8 17 45 86 c 0 0 0 0 0 0 0 0 0 0 265 237 22 10 7 587 13 14 6 79 507 112 64 g 0 0 0 0 0 0 0 0 0 0 146 82 255 553 507 12 7 14 593 7 37 30 372 t 0 0 0 0 0 0 0 0 0 0 118 198 51 20 8 10 25 564 8 522 55 429 94

positions_7nt_m3_shift9 (positions_7nt_m3)
; oligos_6nt_mkv3_m2 versus positions_7nt_m3; m=8/16; ncol2=16; w=-2; offset=-2; strand=D; shift=9; score=0.60234; ---------yyCAGACATGTCTG ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 35 58 37 231 15 234 7 289 15 2 6 11 22 38 c 0 0 0 0 0 0 0 0 0 120 124 221 11 7 5 306 8 4 1 71 283 52 20 g 0 0 0 0 0 0 0 0 0 37 52 20 52 283 71 1 4 8 306 5 7 11 221 t 0 0 0 0 0 0 0 0 0 124 82 38 22 11 6 2 15 289 7 234 15 231 37

positions_6nt_m2_rc_shift8 (positions_6nt_m2_rc)
; oligos_6nt_mkv3_m2 versus positions_6nt_m2_rc; m=9/16; ncol2=15; w=-3; offset=-3; strand=R; shift=8; score=0.578619; --------gyctGGGCATGTyyg ; cor=; Ncor= a 0 0 0 0 0 0 0 0 88 98 79 98 123 21 93 15 773 55 9 13 71 130 207 c 0 0 0 0 0 0 0 0 123 296 552 180 12 17 7 809 23 21 18 75 368 310 197 g 0 0 0 0 0 0 0 0 454 136 127 68 671 763 725 6 13 36 812 22 111 121 255 t 0 0 0 0 0 0 0 0 181 316 88 500 40 45 21 16 37 734 7 736 296 285 187

positions_7nt_m2_shift8 (positions_7nt_m2)
; oligos_6nt_mkv3_m2 versus positions_7nt_m2; m=10/16; ncol2=16; w=-3; offset=-3; strand=D; shift=8; score=0.570154; --------gyctGGGCATGTCyr ; cor=; Ncor= a 0 0 0 0 0 0 0 0 87 95 75 86 98 30 99 7 744 68 11 12 36 94 231 c 0 0 0 0 0 0 0 0 149 302 475 169 18 23 12 799 20 17 19 135 612 452 182 g 0 0 0 0 0 0 0 0 419 110 166 70 668 740 699 6 18 33 788 19 67 44 240 t 0 0 0 0 0 0 0 0 167 315 106 497 38 29 12 10 40 704 4 656 107 232 169

oligos_7nt_mkv4_m4_shift13 (oligos_7nt_mkv4_m4)
; oligos_6nt_mkv3_m2 versus oligos_7nt_mkv4_m4; m=11/16; ncol2=11; w=0; offset=2; strand=D; shift=13; score=0.547905; -------------grCAaGCCCr ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 0 0 92 199 5 420 302 5 7 6 4 148 c 0 0 0 0 0 0 0 0 0 0 0 0 0 91 100 447 33 35 11 443 450 461 102 g 0 0 0 0 0 0 0 0 0 0 0 0 0 211 127 17 17 23 451 10 16 5 144 t 0 0 0 0 0 0 0 0 0 0 0 0 0 83 51 8 7 117 10 17 5 7 83

positions_6nt_m1_rc_shift8 (positions_6nt_m1_rc)
; oligos_6nt_mkv3_m2 versus positions_6nt_m1_rc; m=12/16; ncol2=17; w=-3; offset=-3; strand=R; shift=8; score=0.54566; --------gyctGGGCATGTCyr ; cor=; Ncor= a 0 0 0 0 0 0 0 0 83 77 66 91 124 36 108 4 730 64 5 13 32 91 283 c 0 0 0 0 0 0 0 0 135 297 475 193 21 15 10 778 19 14 17 139 634 430 144 g 0 0 0 0 0 0 0 0 417 111 153 67 608 726 658 6 14 19 769 21 48 43 218 t 0 0 0 0 0 0 0 0 160 310 101 444 42 18 19 7 32 698 4 622 81 231 150

positions_7nt_m1_rc_shift8 (positions_7nt_m1_rc)
; oligos_6nt_mkv3_m2 versus positions_7nt_m1_rc; m=13/16; ncol2=17; w=-3; offset=-3; strand=R; shift=8; score=0.532177; --------gyctGGGCATGTCtg ; cor=; Ncor= a 0 0 0 0 0 0 0 0 75 80 73 81 90 33 100 5 650 54 7 9 33 82 109 c 0 0 0 0 0 0 0 0 117 231 401 133 13 18 5 695 15 14 13 115 537 142 112 g 0 0 0 0 0 0 0 0 365 99 143 53 584 620 592 5 11 35 686 12 70 41 386 t 0 0 0 0 0 0 0 0 157 304 97 447 27 43 17 9 38 611 8 578 74 449 107

positions_6nt_m3_rc_shift8 (positions_6nt_m3_rc)
; oligos_6nt_mkv3_m2 versus positions_6nt_m3_rc; m=14/16; ncol2=18; w=-3; offset=-3; strand=R; shift=8; score=0.515839; --------gyctGGGCATGTCyg ; cor=; Ncor= a 0 0 0 0 0 0 0 0 95 97 71 111 137 34 117 5 779 69 9 12 28 103 190 c 0 0 0 0 0 0 0 0 159 312 504 196 27 23 10 847 23 19 14 157 714 270 149 g 0 0 0 0 0 0 0 0 430 117 175 82 662 769 728 8 17 36 837 19 56 54 399 t 0 0 0 0 0 0 0 0 186 344 120 481 44 44 15 10 51 746 10 682 72 443 132

oligos_7nt_mkv4_m1_rc_shift5 (oligos_7nt_mkv4_m1_rc)
; oligos_6nt_mkv3_m2 versus oligos_7nt_mkv4_m1_rc; m=15/16; ncol2=19; w=-6; offset=-6; strand=R; shift=5; score=0.472155; -----CwtGyCTGGGCATGTCcm ; cor=; Ncor= a 0 0 0 0 0 60 285 67 29 19 23 36 56 25 106 3 504 58 6 14 31 68 167 c 0 0 0 0 0 398 77 39 44 361 496 116 11 8 6 572 23 20 15 126 416 356 157 g 0 0 0 0 0 57 64 82 463 34 31 17 500 531 466 4 16 24 557 16 41 31 138 t 0 0 0 0 0 70 159 397 49 171 35 416 18 21 7 6 42 483 7 429 97 130 123

oligos_6nt_mkv3_m1_shift0 (oligos_6nt_mkv3_m1)
; oligos_6nt_mkv3_m2 versus oligos_6nt_mkv3_m1; m=16/16; ncol2=24; w=-11; offset=-11; strand=D; shift=0; score=0.402779; skrGrCATGyCCrGrCATGyCym ; cor=; Ncor= a 110 103 155 91 354 5 435 53 5 15 25 27 331 33 196 3 497 106 20 26 44 66 171 c 149 139 33 22 15 542 20 8 2 387 508 390 16 7 6 565 22 17 11 196 420 315 154 g 202 163 304 416 178 9 17 22 563 4 5 13 192 513 358 3 10 28 535 22 25 38 136 t 112 168 81 44 26 17 101 490 3 167 35 143 34 20 13 2 44 422 7 329 84 154 112

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv3_m5_shift0 ; 2 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv3_m5_shift0 (oligos_6nt_mkv3_m5)
; oligos_6nt_mkv3_m5; m=0 (reference); ncol1=12; shift=0; ncol=12; rwAAGGAAggrw ; Alignment reference a 191 148 482 495 9 36 502 497 91 100 167 168 c 83 82 8 11 11 8 9 12 27 54 107 99 g 144 129 24 14 499 477 10 9 346 305 133 128 t 111 170 15 9 10 8 8 11 65 70 122 134

oligos_6nt_mkv3_m5_shift0 (oligos_6nt_mkv3_m5)
; oligos_6nt_mkv3_m5 versus oligos_6nt_mkv3_m5; m=1/1; ncol2=12; w=0; offset=0; strand=D; shift=0; score= 1; rwAAGGAAggrw ; cor=; Ncor= a 191 148 482 495 9 36 502 497 91 100 167 168 c 83 82 8 11 11 8 9 12 27 54 107 99 g 144 129 24 14 499 477 10 9 346 305 133 128 t 111 170 15 9 10 8 8 11 65 70 122 134

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv3_m1_shift2 ; 18 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv3_m1_shift2 (oligos_6nt_mkv3_m1)
; oligos_6nt_mkv3_m1; m=0 (reference); ncol1=24; shift=2; ncol=26; --skrGrCATGyCCrGrCATGyCyms ; Alignment reference a 0 0 110 103 155 91 354 5 435 53 5 15 25 27 331 33 196 3 497 106 20 26 44 66 171 123 c 0 0 149 139 33 22 15 542 20 8 2 387 508 390 16 7 6 565 22 17 11 196 420 315 154 180 g 0 0 202 163 304 416 178 9 17 22 563 4 5 13 192 513 358 3 10 28 535 22 25 38 136 156 t 0 0 112 168 81 44 26 17 101 490 3 167 35 143 34 20 13 2 44 422 7 329 84 154 112 114

oligos_6nt_mkv3_m1_shift2 (oligos_6nt_mkv3_m1)
; oligos_6nt_mkv3_m1 versus oligos_6nt_mkv3_m1; m=1/17; ncol2=24; w=0; offset=0; strand=D; shift=2; score= 1; --skrGrCATGyCCrGrCATGyCyms ; cor=; Ncor= a 0 0 110 103 155 91 354 5 435 53 5 15 25 27 331 33 196 3 497 106 20 26 44 66 171 123 c 0 0 149 139 33 22 15 542 20 8 2 387 508 390 16 7 6 565 22 17 11 196 420 315 154 180 g 0 0 202 163 304 416 178 9 17 22 563 4 5 13 192 513 358 3 10 28 535 22 25 38 136 156 t 0 0 112 168 81 44 26 17 101 490 3 167 35 143 34 20 13 2 44 422 7 329 84 154 112 114

oligos_7nt_mkv4_m1_shift2 (oligos_7nt_mkv4_m1)
; oligos_6nt_mkv3_m1 versus oligos_7nt_mkv4_m1; m=2/17; ncol2=19; w=0; offset=0; strand=D; shift=2; score=0.766561; --skgGACATGCCCAGrCawG----- ; cor=; Ncor= a 0 0 106 123 130 97 429 7 483 42 6 7 21 18 416 35 171 49 397 159 70 0 0 0 0 0 c 0 0 196 138 31 41 16 557 24 16 4 466 531 500 17 31 34 463 82 64 57 0 0 0 0 0 g 0 0 185 157 356 416 126 15 20 23 572 6 8 11 116 496 361 44 39 77 398 0 0 0 0 0 t 0 0 98 167 68 31 14 6 58 504 3 106 25 56 36 23 19 29 67 285 60 0 0 0 0 0

positions_7nt_m2_rc_shift2 (positions_7nt_m2_rc)
; oligos_6nt_mkv3_m1 versus positions_7nt_m2_rc; m=3/17; ncol2=16; w=0; offset=0; strand=R; shift=2; score=0.619714; --cyrGACATGCCCagrc-------- ; cor=; Ncor= a 0 0 140 169 232 107 656 4 704 40 10 12 29 38 497 106 315 167 0 0 0 0 0 0 0 0 c 0 0 333 240 44 67 19 788 33 18 6 699 740 668 70 166 110 419 0 0 0 0 0 0 0 0 g 0 0 198 182 452 612 135 19 17 20 799 12 23 18 169 475 302 149 0 0 0 0 0 0 0 0 t 0 0 151 231 94 36 12 11 68 744 7 99 30 98 86 75 95 87 0 0 0 0 0 0 0 0

positions_6nt_m1_shift1 (positions_6nt_m1)
; oligos_6nt_mkv3_m1 versus positions_6nt_m1; m=4/17; ncol2=17; w=-1; offset=-1; strand=D; shift=1; score=0.598273; -ycyrGACATGCCCagrc-------- ; cor=; Ncor= a 0 126 136 150 231 81 622 4 698 32 7 19 18 42 444 101 310 160 0 0 0 0 0 0 0 0 c 0 323 337 218 43 48 21 769 19 14 6 658 726 608 67 153 111 417 0 0 0 0 0 0 0 0 g 0 91 181 144 430 634 139 17 14 19 778 10 15 21 193 475 297 135 0 0 0 0 0 0 0 0 t 0 255 141 283 91 32 13 5 64 730 4 108 36 124 91 66 77 83 0 0 0 0 0 0 0 0

positions_6nt_m2_shift3 (positions_6nt_m2)
; oligos_6nt_mkv3_m1 versus positions_6nt_m2; m=5/17; ncol2=15; w=0; offset=1; strand=D; shift=3; score=0.573897; ---crrACATGCCCagrc-------- ; cor=; Ncor= a 0 0 0 187 285 296 736 7 734 37 16 21 45 40 500 88 316 181 0 0 0 0 0 0 0 0 c 0 0 0 255 121 111 22 812 36 13 6 725 763 671 68 127 136 454 0 0 0 0 0 0 0 0 g 0 0 0 197 310 368 75 18 21 23 809 7 17 12 180 552 296 123 0 0 0 0 0 0 0 0 t 0 0 0 207 130 71 13 9 55 773 15 93 21 123 98 79 98 88 0 0 0 0 0 0 0 0

positions_7nt_m1_shift1 (positions_7nt_m1)
; oligos_6nt_mkv3_m1 versus positions_7nt_m1; m=6/17; ncol2=17; w=-1; offset=-1; strand=D; shift=1; score=0.571534; -yccaGACATGCCCagrc-------- ; cor=; Ncor= a 0 111 127 107 449 74 578 8 611 38 9 17 43 27 447 97 304 157 0 0 0 0 0 0 0 0 c 0 310 303 386 41 70 12 686 35 11 5 592 620 584 53 143 99 365 0 0 0 0 0 0 0 0 g 0 80 151 112 142 537 115 13 14 15 695 5 18 13 133 401 231 117 0 0 0 0 0 0 0 0 t 0 213 133 109 82 33 9 7 54 650 5 100 33 90 81 73 80 75 0 0 0 0 0 0 0 0

positions_6nt_m3_shift0 (positions_6nt_m3)
; oligos_6nt_mkv3_m1 versus positions_6nt_m3; m=7/17; ncol2=18; w=-2; offset=-2; strand=D; shift=0; score=0.560034; gyccrGACATGCCCagrc-------- ; cor=; Ncor= a 92 120 129 132 443 72 682 10 746 51 10 15 44 44 481 120 344 186 0 0 0 0 0 0 0 0 c 187 394 435 399 54 56 19 837 36 17 8 728 769 662 82 175 117 430 0 0 0 0 0 0 0 0 g 472 91 160 149 270 714 157 14 19 23 847 10 23 27 196 504 312 159 0 0 0 0 0 0 0 0 t 119 265 146 190 103 28 12 9 69 779 5 117 34 137 111 71 97 95 0 0 0 0 0 0 0 0

positions_7nt_m5_shift0 (positions_7nt_m5)
; oligos_6nt_mkv3_m1 versus positions_7nt_m5; m=8/17; ncol2=18; w=-2; offset=-2; strand=D; shift=0; score=0.542889; gyctGGGCATGCCCagrc-------- ; cor=; Ncor= a 62 46 57 49 61 23 106 4 449 20 2 6 30 16 303 44 179 83 0 0 0 0 0 0 0 0 c 94 212 308 114 14 15 22 489 22 12 8 370 436 412 38 94 66 265 0 0 0 0 0 0 0 0 g 264 66 94 38 412 435 369 8 12 22 489 22 15 14 114 308 212 93 0 0 0 0 0 0 0 0 t 83 179 44 302 16 30 6 2 20 449 4 105 22 61 48 57 46 62 0 0 0 0 0 0 0 0

positions_6nt_m4_shift1 (positions_6nt_m4)
; oligos_6nt_mkv3_m1 versus positions_6nt_m4; m=9/17; ncol2=16; w=-1; offset=-1; strand=D; shift=1; score=0.535689; -ycygGACATGTCcrgr--------- ; cor=; Ncor= a 0 97 140 122 176 66 547 13 695 31 7 15 32 69 327 139 278 0 0 0 0 0 0 0 0 0 c 0 272 302 192 31 20 10 714 7 12 11 173 627 469 105 163 98 0 0 0 0 0 0 0 0 0 g 0 98 164 105 469 627 173 11 12 7 713 10 20 31 192 302 272 0 0 0 0 0 0 0 0 0 t 0 278 139 326 69 32 15 7 31 695 14 547 66 176 121 141 97 0 0 0 0 0 0 0 0 0

positions_7nt_m4_rc_shift11 (positions_7nt_m4_rc)
; oligos_6nt_mkv3_m1 versus positions_7nt_m4_rc; m=10/17; ncol2=15; w=0; offset=9; strand=R; shift=11; score=0.531997; -----------yccAGACATGCCyrg ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 74 111 94 429 55 522 8 564 25 10 8 20 51 198 118 c 0 0 0 0 0 0 0 0 0 0 0 296 280 372 30 37 7 593 14 7 12 507 553 255 82 146 g 0 0 0 0 0 0 0 0 0 0 0 55 84 64 112 507 79 6 14 13 587 7 10 22 237 265 t 0 0 0 0 0 0 0 0 0 0 0 191 141 86 45 17 8 9 24 571 7 94 33 288 99 87

positions_6nt_m5_shift2 (positions_6nt_m5)
; oligos_6nt_mkv3_m1 versus positions_6nt_m5; m=11/17; ncol2=15; w=0; offset=0; strand=D; shift=2; score=0.523672; --cyrGGCATGTCyagr--------- ; cor=; Ncor= a 0 0 91 115 289 25 110 3 676 29 6 15 22 54 305 134 257 0 0 0 0 0 0 0 0 0 c 0 0 329 261 37 10 9 720 18 14 8 129 613 441 126 154 76 0 0 0 0 0 0 0 0 0 g 0 0 172 87 340 685 598 8 17 14 714 13 36 35 172 316 309 0 0 0 0 0 0 0 0 0 t 0 0 142 271 68 14 17 3 23 677 6 577 63 204 131 130 92 0 0 0 0 0 0 0 0 0

oligos_6nt_mkv3_m3_shift2 (oligos_6nt_mkv3_m3)
; oligos_6nt_mkv3_m1 versus oligos_6nt_mkv3_m3; m=12/17; ncol2=14; w=0; offset=0; strand=D; shift=2; score=0.514997; --cyrGACATGTCyrg---------- ; cor=; Ncor= a 0 0 144 170 237 64 626 9 750 38 5 14 26 105 243 175 0 0 0 0 0 0 0 0 0 0 c 0 0 323 259 42 25 8 791 8 19 10 167 700 431 143 172 0 0 0 0 0 0 0 0 0 0 g 0 0 173 143 431 700 167 10 19 8 790 8 25 42 260 323 0 0 0 0 0 0 0 0 0 0 t 0 0 175 243 105 26 14 5 38 750 10 626 64 237 169 145 0 0 0 0 0 0 0 0 0 0

positions_7nt_m3_shift11 (positions_7nt_m3)
; oligos_6nt_mkv3_m1 versus positions_7nt_m3; m=13/17; ncol2=16; w=0; offset=9; strand=D; shift=11; score=0.506796; -----------yyCAGACATGTCTGr ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 35 58 37 231 15 234 7 289 15 2 6 11 22 38 82 c 0 0 0 0 0 0 0 0 0 0 0 120 124 221 11 7 5 306 8 4 1 71 283 52 20 52 g 0 0 0 0 0 0 0 0 0 0 0 37 52 20 52 283 71 1 4 8 306 5 7 11 221 124 t 0 0 0 0 0 0 0 0 0 0 0 124 82 38 22 11 6 2 15 289 7 234 15 231 37 58

oligos_7nt_mkv4_m5_shift3 (oligos_7nt_mkv4_m5)
; oligos_6nt_mkv3_m1 versus oligos_7nt_mkv4_m5; m=14/17; ncol2=12; w=0; offset=1; strand=D; shift=3; score=0.453392; ---srGACwTGCCyr----------- ; cor=; Ncor= a 0 0 0 117 200 23 523 5 200 15 5 5 15 89 208 0 0 0 0 0 0 0 0 0 0 0 c 0 0 0 189 43 11 12 577 26 10 11 528 549 272 84 0 0 0 0 0 0 0 0 0 0 0 g 0 0 0 178 229 555 45 14 16 12 573 14 14 34 194 0 0 0 0 0 0 0 0 0 0 0 t 0 0 0 113 125 8 17 1 355 560 8 50 19 202 111 0 0 0 0 0 0 0 0 0 0 0

oligos_7nt_mkv4_m2_shift9 (oligos_7nt_mkv4_m2)
; oligos_6nt_mkv3_m1 versus oligos_7nt_mkv4_m2; m=15/17; ncol2=12; w=0; offset=7; strand=D; shift=9; score=0.424649; ---------tgCCCAGACAtg----- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 115 78 22 24 13 580 21 494 21 602 145 125 0 0 0 0 0 c 0 0 0 0 0 0 0 0 0 108 128 556 594 620 9 21 32 586 17 125 80 0 0 0 0 0 g 0 0 0 0 0 0 0 0 0 99 362 23 6 1 19 595 106 30 7 127 366 0 0 0 0 0 t 0 0 0 0 0 0 0 0 0 327 81 48 25 15 41 12 17 12 23 252 78 0 0 0 0 0

oligos_7nt_mkv4_m3_shift13 (oligos_7nt_mkv4_m3)
; oligos_6nt_mkv3_m1 versus oligos_7nt_mkv4_m3; m=16/17; ncol2=12; w=0; offset=11; strand=D; shift=13; score=0.419172; -------------yrGACAAGTCyv- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 0 0 97 172 26 353 7 433 316 4 8 10 97 119 0 c 0 0 0 0 0 0 0 0 0 0 0 0 0 148 38 19 14 429 6 22 1 40 415 182 126 0 g 0 0 0 0 0 0 0 0 0 0 0 0 0 75 177 389 79 11 9 8 442 12 7 27 132 0 t 0 0 0 0 0 0 0 0 0 0 0 0 0 131 64 17 5 4 3 105 4 391 19 145 74 0

oligos_6nt_mkv3_m2_shift13 (oligos_6nt_mkv3_m2)
; oligos_6nt_mkv3_m1 versus oligos_6nt_mkv3_m2; m=17/17; ncol2=12; w=0; offset=11; strand=D; shift=13; score=0.402779; -------------hrgACAAGTCys- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 0 0 146 198 81 397 7 556 404 5 11 18 140 141 0 c 0 0 0 0 0 0 0 0 0 0 0 0 0 168 70 59 44 557 11 24 7 16 535 202 157 0 g 0 0 0 0 0 0 0 0 0 0 0 0 0 108 209 350 116 12 9 15 560 6 6 54 172 0 t 0 0 0 0 0 0 0 0 0 0 0 0 0 159 104 91 24 5 5 138 9 548 22 185 111 0

One-to-n matrix alignment; reference matrix: positions_7nt_m3_shift9 ; 17 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
positions_7nt_m3_shift9 (positions_7nt_m3)
; positions_7nt_m3; m=0 (reference); ncol1=16; shift=9; ncol=25; ---------yyCAGACATGTCTGrr ; Alignment reference a 0 0 0 0 0 0 0 0 0 35 58 37 231 15 234 7 289 15 2 6 11 22 38 82 124 c 0 0 0 0 0 0 0 0 0 120 124 221 11 7 5 306 8 4 1 71 283 52 20 52 37 g 0 0 0 0 0 0 0 0 0 37 52 20 52 283 71 1 4 8 306 5 7 11 221 124 120 t 0 0 0 0 0 0 0 0 0 124 82 38 22 11 6 2 15 289 7 234 15 231 37 58 35

positions_7nt_m3_shift9 (positions_7nt_m3)
; positions_7nt_m3 versus positions_7nt_m3; m=1/16; ncol2=16; w=0; offset=0; strand=D; shift=9; score= 1; ---------yyCAGACATGTCTGrr ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 35 58 37 231 15 234 7 289 15 2 6 11 22 38 82 124 c 0 0 0 0 0 0 0 0 0 120 124 221 11 7 5 306 8 4 1 71 283 52 20 52 37 g 0 0 0 0 0 0 0 0 0 37 52 20 52 283 71 1 4 8 306 5 7 11 221 124 120 t 0 0 0 0 0 0 0 0 0 124 82 38 22 11 6 2 15 289 7 234 15 231 37 58 35

positions_6nt_m4_rc_shift9 (positions_6nt_m4_rc)
; positions_7nt_m3 versus positions_6nt_m4_rc; m=2/16; ncol2=16; w=0; offset=0; strand=R; shift=9; score=0.856266; ---------ycygGACATGTCcrgr ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 97 141 121 176 66 547 14 695 31 7 15 32 69 326 139 278 c 0 0 0 0 0 0 0 0 0 272 302 192 31 20 10 713 7 12 11 173 627 469 105 164 98 g 0 0 0 0 0 0 0 0 0 98 163 105 469 627 173 11 12 7 714 10 20 31 192 302 272 t 0 0 0 0 0 0 0 0 0 278 139 327 69 32 15 7 31 695 13 547 66 176 122 140 97

positions_7nt_m4_shift10 (positions_7nt_m4)
; positions_7nt_m3 versus positions_7nt_m4; m=3/16; ncol2=15; w=0; offset=1; strand=D; shift=10; score=0.847367; ----------cyrGGCATGTCTggr ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 87 99 288 33 94 7 571 24 9 8 17 45 86 141 191 c 0 0 0 0 0 0 0 0 0 0 265 237 22 10 7 587 13 14 6 79 507 112 64 84 55 g 0 0 0 0 0 0 0 0 0 0 146 82 255 553 507 12 7 14 593 7 37 30 372 280 296 t 0 0 0 0 0 0 0 0 0 0 118 198 51 20 8 10 25 564 8 522 55 429 94 111 74

oligos_6nt_mkv3_m3_rc_shift10 (oligos_6nt_mkv3_m3_rc)
; positions_7nt_m3 versus oligos_6nt_mkv3_m3_rc; m=4/16; ncol2=14; w=0; offset=1; strand=R; shift=10; score=0.786994; ----------cyrGACATGTCyrg- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 145 169 237 64 626 10 750 38 5 14 26 105 243 175 0 c 0 0 0 0 0 0 0 0 0 0 323 260 42 25 8 790 8 19 10 167 700 431 143 173 0 g 0 0 0 0 0 0 0 0 0 0 172 143 431 700 167 10 19 8 791 8 25 42 259 323 0 t 0 0 0 0 0 0 0 0 0 0 175 243 105 26 14 5 38 750 9 626 64 237 170 144 0

positions_6nt_m5_shift10 (positions_6nt_m5)
; positions_7nt_m3 versus positions_6nt_m5; m=5/16; ncol2=15; w=0; offset=1; strand=D; shift=10; score=0.778644; ----------cyrGGCATGTCyagr ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 91 115 289 25 110 3 676 29 6 15 22 54 305 134 257 c 0 0 0 0 0 0 0 0 0 0 329 261 37 10 9 720 18 14 8 129 613 441 126 154 76 g 0 0 0 0 0 0 0 0 0 0 172 87 340 685 598 8 17 14 714 13 36 35 172 316 309 t 0 0 0 0 0 0 0 0 0 0 142 271 68 14 17 3 23 677 6 577 63 204 131 130 92

positions_7nt_m1_rc_shift8 (positions_7nt_m1_rc)
; positions_7nt_m3 versus positions_7nt_m1_rc; m=6/16; ncol2=17; w=-1; offset=-1; strand=R; shift=8; score=0.755292; --------gyctGGGCATGTCtggr ; cor=; Ncor= a 0 0 0 0 0 0 0 0 75 80 73 81 90 33 100 5 650 54 7 9 33 82 109 133 213 c 0 0 0 0 0 0 0 0 117 231 401 133 13 18 5 695 15 14 13 115 537 142 112 151 80 g 0 0 0 0 0 0 0 0 365 99 143 53 584 620 592 5 11 35 686 12 70 41 386 303 310 t 0 0 0 0 0 0 0 0 157 304 97 447 27 43 17 9 38 611 8 578 74 449 107 127 111

positions_6nt_m1_rc_shift8 (positions_6nt_m1_rc)
; positions_7nt_m3 versus positions_6nt_m1_rc; m=7/16; ncol2=17; w=-1; offset=-1; strand=R; shift=8; score=0.727513; --------gyctGGGCATGTCyrgr ; cor=; Ncor= a 0 0 0 0 0 0 0 0 83 77 66 91 124 36 108 4 730 64 5 13 32 91 283 141 255 c 0 0 0 0 0 0 0 0 135 297 475 193 21 15 10 778 19 14 17 139 634 430 144 181 91 g 0 0 0 0 0 0 0 0 417 111 153 67 608 726 658 6 14 19 769 21 48 43 218 337 323 t 0 0 0 0 0 0 0 0 160 310 101 444 42 18 19 7 32 698 4 622 81 231 150 136 126

positions_6nt_m3_rc_shift8 (positions_6nt_m3_rc)
; positions_7nt_m3 versus positions_6nt_m3_rc; m=8/16; ncol2=18; w=-1; offset=-1; strand=R; shift=8; score= 0.72; --------gyctGGGCATGTCyggr ; cor=; Ncor= a 0 0 0 0 0 0 0 0 95 97 71 111 137 34 117 5 779 69 9 12 28 103 190 146 265 c 0 0 0 0 0 0 0 0 159 312 504 196 27 23 10 847 23 19 14 157 714 270 149 160 91 g 0 0 0 0 0 0 0 0 430 117 175 82 662 769 728 8 17 36 837 19 56 54 399 435 394 t 0 0 0 0 0 0 0 0 186 344 120 481 44 44 15 10 51 746 10 682 72 443 132 129 120

positions_7nt_m2_rc_shift10 (positions_7nt_m2_rc)
; positions_7nt_m3 versus positions_7nt_m2_rc; m=9/16; ncol2=16; w=0; offset=1; strand=R; shift=10; score=0.66078; ----------cyrGACATGCCCagr ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 140 169 232 107 656 4 704 40 10 12 29 38 497 106 315 c 0 0 0 0 0 0 0 0 0 0 333 240 44 67 19 788 33 18 6 699 740 668 70 166 110 g 0 0 0 0 0 0 0 0 0 0 198 182 452 612 135 19 17 20 799 12 23 18 169 475 302 t 0 0 0 0 0 0 0 0 0 0 151 231 94 36 12 11 68 744 7 99 30 98 86 75 95

oligos_7nt_mkv4_m3_rc_shift11 (oligos_7nt_mkv4_m3_rc)
; positions_7nt_m3 versus oligos_7nt_mkv4_m3_rc; m=10/16; ncol2=12; w=0; offset=2; strand=R; shift=11; score=0.619775; -----------brGACTTGTCyr-- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 74 145 19 391 4 105 3 4 5 17 64 131 0 0 c 0 0 0 0 0 0 0 0 0 0 0 132 27 7 12 442 8 9 11 79 389 177 75 0 0 g 0 0 0 0 0 0 0 0 0 0 0 126 182 415 40 1 22 6 429 14 19 38 148 0 0 t 0 0 0 0 0 0 0 0 0 0 0 119 97 10 8 4 316 433 7 353 26 172 97 0 0

oligos_6nt_mkv3_m2_rc_shift11 (oligos_6nt_mkv3_m2_rc)
; positions_7nt_m3 versus oligos_6nt_mkv3_m2_rc; m=11/16; ncol2=12; w=0; offset=2; strand=R; shift=11; score=0.60234; -----------srGACTTGTcyd-- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 111 185 22 548 9 138 5 5 24 91 104 159 0 0 c 0 0 0 0 0 0 0 0 0 0 0 172 54 6 6 560 15 9 12 116 350 209 108 0 0 g 0 0 0 0 0 0 0 0 0 0 0 157 202 535 16 7 24 11 557 44 59 70 168 0 0 t 0 0 0 0 0 0 0 0 0 0 0 141 140 18 11 5 404 556 7 397 81 198 146 0 0

positions_6nt_m2_rc_shift8 (positions_6nt_m2_rc)
; positions_7nt_m3 versus positions_6nt_m2_rc; m=12/16; ncol2=15; w=-1; offset=-1; strand=R; shift=8; score=0.601262; --------gyctGGGCATGTyyg-- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 88 98 79 98 123 21 93 15 773 55 9 13 71 130 207 0 0 c 0 0 0 0 0 0 0 0 123 296 552 180 12 17 7 809 23 21 18 75 368 310 197 0 0 g 0 0 0 0 0 0 0 0 454 136 127 68 671 763 725 6 13 36 812 22 111 121 255 0 0 t 0 0 0 0 0 0 0 0 181 316 88 500 40 45 21 16 37 734 7 736 296 285 187 0 0

oligos_7nt_mkv4_m5_shift11 (oligos_7nt_mkv4_m5)
; positions_7nt_m3 versus oligos_7nt_mkv4_m5; m=13/16; ncol2=12; w=0; offset=2; strand=D; shift=11; score=0.573481; -----------srGACwTGCCyr-- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 117 200 23 523 5 200 15 5 5 15 89 208 0 0 c 0 0 0 0 0 0 0 0 0 0 0 189 43 11 12 577 26 10 11 528 549 272 84 0 0 g 0 0 0 0 0 0 0 0 0 0 0 178 229 555 45 14 16 12 573 14 14 34 194 0 0 t 0 0 0 0 0 0 0 0 0 0 0 113 125 8 17 1 355 560 8 50 19 202 111 0 0

oligos_7nt_mkv4_m1_shift10 (oligos_7nt_mkv4_m1)
; positions_7nt_m3 versus oligos_7nt_mkv4_m1; m=14/16; ncol2=19; w=0; offset=1; strand=D; shift=10; score=0.528804; ----------skgGACATGCCCAGr ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 106 123 130 97 429 7 483 42 6 7 21 18 416 35 171 c 0 0 0 0 0 0 0 0 0 0 196 138 31 41 16 557 24 16 4 466 531 500 17 31 34 g 0 0 0 0 0 0 0 0 0 0 185 157 356 416 126 15 20 23 572 6 8 11 116 496 361 t 0 0 0 0 0 0 0 0 0 0 98 167 68 31 14 6 58 504 3 106 25 56 36 23 19

oligos_6nt_mkv3_m1_shift0 (oligos_6nt_mkv3_m1)
; positions_7nt_m3 versus oligos_6nt_mkv3_m1; m=15/16; ncol2=24; w=-9; offset=-9; strand=D; shift=0; score=0.506796; skrGrCATGyCCrGrCATGyCyms- ; cor=; Ncor= a 110 103 155 91 354 5 435 53 5 15 25 27 331 33 196 3 497 106 20 26 44 66 171 123 0 c 149 139 33 22 15 542 20 8 2 387 508 390 16 7 6 565 22 17 11 196 420 315 154 180 0 g 202 163 304 416 178 9 17 22 563 4 5 13 192 513 358 3 10 28 535 22 25 38 136 156 0 t 112 168 81 44 26 17 101 490 3 167 35 143 34 20 13 2 44 422 7 329 84 154 112 114 0

oligos_7nt_mkv4_m2_shift7 (oligos_7nt_mkv4_m2)
; positions_7nt_m3 versus oligos_7nt_mkv4_m2; m=16/16; ncol2=12; w=-2; offset=-2; strand=D; shift=7; score=0.464237; -------tgCCCAGACAtg------ ; cor=; Ncor= a 0 0 0 0 0 0 0 115 78 22 24 13 580 21 494 21 602 145 125 0 0 0 0 0 0 c 0 0 0 0 0 0 0 108 128 556 594 620 9 21 32 586 17 125 80 0 0 0 0 0 0 g 0 0 0 0 0 0 0 99 362 23 6 1 19 595 106 30 7 127 366 0 0 0 0 0 0 t 0 0 0 0 0 0 0 327 81 48 25 15 41 12 17 12 23 252 78 0 0 0 0 0 0

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv3_m3_shift2 ; 18 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv3_m3_shift2 (oligos_6nt_mkv3_m3)
; oligos_6nt_mkv3_m3; m=0 (reference); ncol1=14; shift=2; ncol=16; --cyrGACATGTCyrg ; Alignment reference a 0 0 144 170 237 64 626 9 750 38 5 14 26 105 243 175 c 0 0 323 259 42 25 8 791 8 19 10 167 700 431 143 172 g 0 0 173 143 431 700 167 10 19 8 790 8 25 42 260 323 t 0 0 175 243 105 26 14 5 38 750 10 626 64 237 169 145

oligos_6nt_mkv3_m3_shift2 (oligos_6nt_mkv3_m3)
; oligos_6nt_mkv3_m3 versus oligos_6nt_mkv3_m3; m=1/17; ncol2=14; w=0; offset=0; strand=D; shift=2; score= 1; --cyrGACATGTCyrg ; cor=; Ncor= a 0 0 144 170 237 64 626 9 750 38 5 14 26 105 243 175 c 0 0 323 259 42 25 8 791 8 19 10 167 700 431 143 172 g 0 0 173 143 431 700 167 10 19 8 790 8 25 42 260 323 t 0 0 175 243 105 26 14 5 38 750 10 626 64 237 169 145

positions_6nt_m4_shift1 (positions_6nt_m4)
; oligos_6nt_mkv3_m3 versus positions_6nt_m4; m=2/17; ncol2=16; w=-1; offset=-1; strand=D; shift=1; score=0.86677; -ycygGACATGTCcrg ; cor=; Ncor= a 0 97 140 122 176 66 547 13 695 31 7 15 32 69 327 139 c 0 272 302 192 31 20 10 714 7 12 11 173 627 469 105 163 g 0 98 164 105 469 627 173 11 12 7 713 10 20 31 192 302 t 0 278 139 326 69 32 15 7 31 695 14 547 66 176 121 141

positions_6nt_m5_rc_shift1 (positions_6nt_m5_rc)
; oligos_6nt_mkv3_m3 versus positions_6nt_m5_rc; m=3/17; ncol2=15; w=-1; offset=-1; strand=R; shift=1; score=0.854151; -yctrGACATGCCyrg ; cor=; Ncor= a 0 92 130 131 204 63 577 6 677 23 3 17 14 68 271 142 c 0 309 316 172 35 36 13 714 14 17 8 598 685 340 87 172 g 0 76 154 126 441 613 129 8 14 18 720 9 10 37 261 329 t 0 257 134 305 54 22 15 6 29 676 3 110 25 289 115 91

positions_7nt_m4_shift2 (positions_7nt_m4)
; oligos_6nt_mkv3_m3 versus positions_7nt_m4; m=4/17; ncol2=15; w=0; offset=0; strand=D; shift=2; score=0.816769; --cyrGGCATGTCTgg ; cor=; Ncor= a 0 0 87 99 288 33 94 7 571 24 9 8 17 45 86 141 c 0 0 265 237 22 10 7 587 13 14 6 79 507 112 64 84 g 0 0 146 82 255 553 507 12 7 14 593 7 37 30 372 280 t 0 0 118 198 51 20 8 10 25 564 8 522 55 429 94 111

positions_7nt_m3_shift1 (positions_7nt_m3)
; oligos_6nt_mkv3_m3 versus positions_7nt_m3; m=5/17; ncol2=16; w=-1; offset=-1; strand=D; shift=1; score=0.786994; -yyCAGACATGTCTGr ; cor=; Ncor= a 0 35 58 37 231 15 234 7 289 15 2 6 11 22 38 82 c 0 120 124 221 11 7 5 306 8 4 1 71 283 52 20 52 g 0 37 52 20 52 283 71 1 4 8 306 5 7 11 221 124 t 0 124 82 38 22 11 6 2 15 289 7 234 15 231 37 58

positions_7nt_m2_shift0 (positions_7nt_m2)
; oligos_6nt_mkv3_m3 versus positions_7nt_m2; m=6/17; ncol2=16; w=-2; offset=-2; strand=D; shift=0; score=0.772536; gyctGGGCATGTCyrg ; cor=; Ncor= a 87 95 75 86 98 30 99 7 744 68 11 12 36 94 231 151 c 149 302 475 169 18 23 12 799 20 17 19 135 612 452 182 198 g 419 110 166 70 668 740 699 6 18 33 788 19 67 44 240 333 t 167 315 106 497 38 29 12 10 40 704 4 656 107 232 169 140

oligos_7nt_mkv4_m3_rc_shift3 (oligos_7nt_mkv4_m3_rc)
; oligos_6nt_mkv3_m3 versus oligos_7nt_mkv4_m3_rc; m=7/17; ncol2=12; w=0; offset=1; strand=R; shift=3; score=0.763174; ---brGACTTGTCyr- ; cor=; Ncor= a 0 0 0 74 145 19 391 4 105 3 4 5 17 64 131 0 c 0 0 0 132 27 7 12 442 8 9 11 79 389 177 75 0 g 0 0 0 126 182 415 40 1 22 6 429 14 19 38 148 0 t 0 0 0 119 97 10 8 4 316 433 7 353 26 172 97 0

oligos_6nt_mkv3_m2_shift3 (oligos_6nt_mkv3_m2)
; oligos_6nt_mkv3_m3 versus oligos_6nt_mkv3_m2; m=8/17; ncol2=12; w=0; offset=1; strand=D; shift=3; score=0.744156; ---hrgACAAGTCys- ; cor=; Ncor= a 0 0 0 146 198 81 397 7 556 404 5 11 18 140 141 0 c 0 0 0 168 70 59 44 557 11 24 7 16 535 202 157 0 g 0 0 0 108 209 350 116 12 9 15 560 6 6 54 172 0 t 0 0 0 159 104 91 24 5 5 138 9 548 22 185 111 0

positions_6nt_m1_rc_shift0 (positions_6nt_m1_rc)
; oligos_6nt_mkv3_m3 versus positions_6nt_m1_rc; m=9/17; ncol2=17; w=-2; offset=-2; strand=R; shift=0; score=0.738389; gyctGGGCATGTCyrg ; cor=; Ncor= a 83 77 66 91 124 36 108 4 730 64 5 13 32 91 283 141 c 135 297 475 193 21 15 10 778 19 14 17 139 634 430 144 181 g 417 111 153 67 608 726 658 6 14 19 769 21 48 43 218 337 t 160 310 101 444 42 18 19 7 32 698 4 622 81 231 150 136

positions_7nt_m1_rc_shift0 (positions_7nt_m1_rc)
; oligos_6nt_mkv3_m3 versus positions_7nt_m1_rc; m=10/17; ncol2=17; w=-2; offset=-2; strand=R; shift=0; score=0.708195; gyctGGGCATGTCtgg ; cor=; Ncor= a 75 80 73 81 90 33 100 5 650 54 7 9 33 82 109 133 c 117 231 401 133 13 18 5 695 15 14 13 115 537 142 112 151 g 365 99 143 53 584 620 592 5 11 35 686 12 70 41 386 303 t 157 304 97 447 27 43 17 9 38 611 8 578 74 449 107 127

oligos_7nt_mkv4_m5_shift3 (oligos_7nt_mkv4_m5)
; oligos_6nt_mkv3_m3 versus oligos_7nt_mkv4_m5; m=11/17; ncol2=12; w=0; offset=1; strand=D; shift=3; score=0.702019; ---srGACwTGCCyr- ; cor=; Ncor= a 0 0 0 117 200 23 523 5 200 15 5 5 15 89 208 0 c 0 0 0 189 43 11 12 577 26 10 11 528 549 272 84 0 g 0 0 0 178 229 555 45 14 16 12 573 14 14 34 194 0 t 0 0 0 113 125 8 17 1 355 560 8 50 19 202 111 0

positions_6nt_m3_rc_shift0 (positions_6nt_m3_rc)
; oligos_6nt_mkv3_m3 versus positions_6nt_m3_rc; m=12/17; ncol2=18; w=-2; offset=-2; strand=R; shift=0; score=0.686588; gyctGGGCATGTCygg ; cor=; Ncor= a 95 97 71 111 137 34 117 5 779 69 9 12 28 103 190 146 c 159 312 504 196 27 23 10 847 23 19 14 157 714 270 149 160 g 430 117 175 82 662 769 728 8 17 36 837 19 56 54 399 435 t 186 344 120 481 44 44 15 10 51 746 10 682 72 443 132 129

positions_6nt_m2_shift3 (positions_6nt_m2)
; oligos_6nt_mkv3_m3 versus positions_6nt_m2; m=13/17; ncol2=15; w=0; offset=1; strand=D; shift=3; score=0.685257; ---crrACATGCCCag ; cor=; Ncor= a 0 0 0 187 285 296 736 7 734 37 16 21 45 40 500 88 c 0 0 0 255 121 111 22 812 36 13 6 725 763 671 68 127 g 0 0 0 197 310 368 75 18 21 23 809 7 17 12 180 552 t 0 0 0 207 130 71 13 9 55 773 15 93 21 123 98 79

positions_7nt_m5_shift0 (positions_7nt_m5)
; oligos_6nt_mkv3_m3 versus positions_7nt_m5; m=14/17; ncol2=18; w=-2; offset=-2; strand=D; shift=0; score=0.645753; gyctGGGCATGCCCag ; cor=; Ncor= a 62 46 57 49 61 23 106 4 449 20 2 6 30 16 303 44 c 94 212 308 114 14 15 22 489 22 12 8 370 436 412 38 94 g 264 66 94 38 412 435 369 8 12 22 489 22 15 14 114 308 t 83 179 44 302 16 30 6 2 20 449 4 105 22 61 48 57

oligos_7nt_mkv4_m1_shift2 (oligos_7nt_mkv4_m1)
; oligos_6nt_mkv3_m3 versus oligos_7nt_mkv4_m1; m=15/17; ncol2=19; w=0; offset=0; strand=D; shift=2; score=0.632778; --skgGACATGCCCAG ; cor=; Ncor= a 0 0 106 123 130 97 429 7 483 42 6 7 21 18 416 35 c 0 0 196 138 31 41 16 557 24 16 4 466 531 500 17 31 g 0 0 185 157 356 416 126 15 20 23 572 6 8 11 116 496 t 0 0 98 167 68 31 14 6 58 504 3 106 25 56 36 23

oligos_7nt_mkv4_m4_rc_shift2 (oligos_7nt_mkv4_m4_rc)
; oligos_6nt_mkv3_m3 versus oligos_7nt_mkv4_m4_rc; m=16/17; ncol2=11; w=0; offset=0; strand=R; shift=2; score=0.550571; --syGGGCtTGyc--- ; cor=; Ncor= a 0 0 59 83 7 5 17 10 117 7 8 51 83 0 0 0 c 0 0 222 144 5 16 10 451 23 17 17 127 211 0 0 0 g 0 0 137 102 461 450 443 11 35 33 447 100 91 0 0 0 t 0 0 59 148 4 6 7 5 302 420 5 199 92 0 0 0

oligos_6nt_mkv3_m1_shift2 (oligos_6nt_mkv3_m1)
; oligos_6nt_mkv3_m3 versus oligos_6nt_mkv3_m1; m=17/17; ncol2=24; w=0; offset=0; strand=D; shift=2; score=0.514997; --skrGrCATGyCCrG ; cor=; Ncor= a 0 0 110 103 155 91 354 5 435 53 5 15 25 27 331 33 c 0 0 149 139 33 22 15 542 20 8 2 387 508 390 16 7 g 0 0 202 163 304 416 178 9 17 22 563 4 5 13 192 513 t 0 0 112 168 81 44 26 17 101 490 3 167 35 143 34 20

One-to-n matrix alignment; reference matrix: positions_6nt_m3_shift1 ; 19 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
positions_6nt_m3_shift1 (positions_6nt_m3)
; positions_6nt_m3; m=0 (reference); ncol1=18; shift=1; ncol=19; -gyccrGACATGCCCagrc ; Alignment reference a 0 92 120 129 132 443 72 682 10 746 51 10 15 44 44 481 120 344 186 c 0 187 394 435 399 54 56 19 837 36 17 8 728 769 662 82 175 117 430 g 0 472 91 160 149 270 714 157 14 19 23 847 10 23 27 196 504 312 159 t 0 119 265 146 190 103 28 12 9 69 779 5 117 34 137 111 71 97 95

positions_6nt_m3_shift1 (positions_6nt_m3)
; positions_6nt_m3 versus positions_6nt_m3; m=1/18; ncol2=18; w=0; offset=0; strand=D; shift=1; score= 1; -gyccrGACATGCCCagrc ; cor=; Ncor= a 0 92 120 129 132 443 72 682 10 746 51 10 15 44 44 481 120 344 186 c 0 187 394 435 399 54 56 19 837 36 17 8 728 769 662 82 175 117 430 g 0 472 91 160 149 270 714 157 14 19 23 847 10 23 27 196 504 312 159 t 0 119 265 146 190 103 28 12 9 69 779 5 117 34 137 111 71 97 95

positions_7nt_m1_shift2 (positions_7nt_m1)
; positions_6nt_m3 versus positions_7nt_m1; m=2/18; ncol2=17; w=0; offset=1; strand=D; shift=2; score=0.938416; --yccaGACATGCCCagrc ; cor=; Ncor= a 0 0 111 127 107 449 74 578 8 611 38 9 17 43 27 447 97 304 157 c 0 0 310 303 386 41 70 12 686 35 11 5 592 620 584 53 143 99 365 g 0 0 80 151 112 142 537 115 13 14 15 695 5 18 13 133 401 231 117 t 0 0 213 133 109 82 33 9 7 54 650 5 100 33 90 81 73 80 75

positions_6nt_m1_shift2 (positions_6nt_m1)
; positions_6nt_m3 versus positions_6nt_m1; m=3/18; ncol2=17; w=0; offset=1; strand=D; shift=2; score=0.929305; --ycyrGACATGCCCagrc ; cor=; Ncor= a 0 0 126 136 150 231 81 622 4 698 32 7 19 18 42 444 101 310 160 c 0 0 323 337 218 43 48 21 769 19 14 6 658 726 608 67 153 111 417 g 0 0 91 181 144 430 634 139 17 14 19 778 10 15 21 193 475 297 135 t 0 0 255 141 283 91 32 13 5 64 730 4 108 36 124 91 66 77 83

positions_7nt_m5_shift1 (positions_7nt_m5)
; positions_6nt_m3 versus positions_7nt_m5; m=4/18; ncol2=18; w=0; offset=0; strand=D; shift=1; score=0.885966; -gyctGGGCATGCCCagrc ; cor=; Ncor= a 0 62 46 57 49 61 23 106 4 449 20 2 6 30 16 303 44 179 83 c 0 94 212 308 114 14 15 22 489 22 12 8 370 436 412 38 94 66 265 g 0 264 66 94 38 412 435 369 8 12 22 489 22 15 14 114 308 212 93 t 0 83 179 44 302 16 30 6 2 20 449 4 105 22 61 48 57 46 62

positions_7nt_m2_rc_shift3 (positions_7nt_m2_rc)
; positions_6nt_m3 versus positions_7nt_m2_rc; m=5/18; ncol2=16; w=0; offset=2; strand=R; shift=3; score=0.874031; ---cyrGACATGCCCagrc ; cor=; Ncor= a 0 0 0 140 169 232 107 656 4 704 40 10 12 29 38 497 106 315 167 c 0 0 0 333 240 44 67 19 788 33 18 6 699 740 668 70 166 110 419 g 0 0 0 198 182 452 612 135 19 17 20 799 12 23 18 169 475 302 149 t 0 0 0 151 231 94 36 12 11 68 744 7 99 30 98 86 75 95 87

positions_6nt_m2_shift4 (positions_6nt_m2)
; positions_6nt_m3 versus positions_6nt_m2; m=6/18; ncol2=15; w=0; offset=3; strand=D; shift=4; score=0.806154; ----crrACATGCCCagrc ; cor=; Ncor= a 0 0 0 0 187 285 296 736 7 734 37 16 21 45 40 500 88 316 181 c 0 0 0 0 255 121 111 22 812 36 13 6 725 763 671 68 127 136 454 g 0 0 0 0 197 310 368 75 18 21 23 809 7 17 12 180 552 296 123 t 0 0 0 0 207 130 71 13 9 55 773 15 93 21 123 98 79 98 88

positions_7nt_m4_rc_shift2 (positions_7nt_m4_rc)
; positions_6nt_m3 versus positions_7nt_m4_rc; m=7/18; ncol2=15; w=0; offset=1; strand=R; shift=2; score=0.798576; --yccAGACATGCCyrg-- ; cor=; Ncor= a 0 0 74 111 94 429 55 522 8 564 25 10 8 20 51 198 118 0 0 c 0 0 296 280 372 30 37 7 593 14 7 12 507 553 255 82 146 0 0 g 0 0 55 84 64 112 507 79 6 14 13 587 7 10 22 237 265 0 0 t 0 0 191 141 86 45 17 8 9 24 571 7 94 33 288 99 87 0 0

positions_6nt_m5_rc_shift2 (positions_6nt_m5_rc)
; positions_6nt_m3 versus positions_6nt_m5_rc; m=8/18; ncol2=15; w=0; offset=1; strand=R; shift=2; score=0.795268; --yctrGACATGCCyrg-- ; cor=; Ncor= a 0 0 92 130 131 204 63 577 6 677 23 3 17 14 68 271 142 0 0 c 0 0 309 316 172 35 36 13 714 14 17 8 598 685 340 87 172 0 0 g 0 0 76 154 126 441 613 129 8 14 18 720 9 10 37 261 329 0 0 t 0 0 257 134 305 54 22 15 6 29 676 3 110 25 289 115 91 0 0

positions_6nt_m4_shift2 (positions_6nt_m4)
; positions_6nt_m3 versus positions_6nt_m4; m=9/18; ncol2=16; w=0; offset=1; strand=D; shift=2; score= 0.7915; --ycygGACATGTCcrgr- ; cor=; Ncor= a 0 0 97 140 122 176 66 547 13 695 31 7 15 32 69 327 139 278 0 c 0 0 272 302 192 31 20 10 714 7 12 11 173 627 469 105 163 98 0 g 0 0 98 164 105 469 627 173 11 12 7 713 10 20 31 192 302 272 0 t 0 0 278 139 326 69 32 15 7 31 695 14 547 66 176 121 141 97 0

positions_7nt_m3_shift2 (positions_7nt_m3)
; positions_6nt_m3 versus positions_7nt_m3; m=10/18; ncol2=16; w=0; offset=1; strand=D; shift=2; score= 0.72; --yyCAGACATGTCTGrr- ; cor=; Ncor= a 0 0 35 58 37 231 15 234 7 289 15 2 6 11 22 38 82 124 0 c 0 0 120 124 221 11 7 5 306 8 4 1 71 283 52 20 52 37 0 g 0 0 37 52 20 52 283 71 1 4 8 306 5 7 11 221 124 120 0 t 0 0 124 82 38 22 11 6 2 15 289 7 234 15 231 37 58 35 0

oligos_7nt_mkv4_m1_shift3 (oligos_7nt_mkv4_m1)
; positions_6nt_m3 versus oligos_7nt_mkv4_m1; m=11/18; ncol2=19; w=0; offset=2; strand=D; shift=3; score=0.717939; ---skgGACATGCCCAGrC ; cor=; Ncor= a 0 0 0 106 123 130 97 429 7 483 42 6 7 21 18 416 35 171 49 c 0 0 0 196 138 31 41 16 557 24 16 4 466 531 500 17 31 34 463 g 0 0 0 185 157 356 416 126 15 20 23 572 6 8 11 116 496 361 44 t 0 0 0 98 167 68 31 14 6 58 504 3 106 25 56 36 23 19 29

oligos_6nt_mkv3_m3_rc_shift3 (oligos_6nt_mkv3_m3_rc)
; positions_6nt_m3 versus oligos_6nt_mkv3_m3_rc; m=12/18; ncol2=14; w=0; offset=2; strand=R; shift=3; score=0.686588; ---cyrGACATGTCyrg-- ; cor=; Ncor= a 0 0 0 145 169 237 64 626 10 750 38 5 14 26 105 243 175 0 0 c 0 0 0 323 260 42 25 8 790 8 19 10 167 700 431 143 173 0 0 g 0 0 0 172 143 431 700 167 10 19 8 791 8 25 42 259 323 0 0 t 0 0 0 175 243 105 26 14 5 38 750 9 626 64 237 170 144 0 0

oligos_7nt_mkv4_m5_shift4 (oligos_7nt_mkv4_m5)
; positions_6nt_m3 versus oligos_7nt_mkv4_m5; m=13/18; ncol2=12; w=0; offset=3; strand=D; shift=4; score=0.607141; ----srGACwTGCCyr--- ; cor=; Ncor= a 0 0 0 0 117 200 23 523 5 200 15 5 5 15 89 208 0 0 0 c 0 0 0 0 189 43 11 12 577 26 10 11 528 549 272 84 0 0 0 g 0 0 0 0 178 229 555 45 14 16 12 573 14 14 34 194 0 0 0 t 0 0 0 0 113 125 8 17 1 355 560 8 50 19 202 111 0 0 0

oligos_6nt_mkv3_m1_shift3 (oligos_6nt_mkv3_m1)
; positions_6nt_m3 versus oligos_6nt_mkv3_m1; m=14/18; ncol2=24; w=0; offset=2; strand=D; shift=3; score=0.560034; ---skrGrCATGyCCrGrC ; cor=; Ncor= a 0 0 0 110 103 155 91 354 5 435 53 5 15 25 27 331 33 196 3 c 0 0 0 149 139 33 22 15 542 20 8 2 387 508 390 16 7 6 565 g 0 0 0 202 163 304 416 178 9 17 22 563 4 5 13 192 513 358 3 t 0 0 0 112 168 81 44 26 17 101 490 3 167 35 143 34 20 13 2

oligos_7nt_mkv4_m4_shift6 (oligos_7nt_mkv4_m4)
; positions_6nt_m3 versus oligos_7nt_mkv4_m4; m=15/18; ncol2=11; w=0; offset=5; strand=D; shift=6; score=0.522932; ------grCAaGCCCrs-- ; cor=; Ncor= a 0 0 0 0 0 0 92 199 5 420 302 5 7 6 4 148 59 0 0 c 0 0 0 0 0 0 91 100 447 33 35 11 443 450 461 102 137 0 0 g 0 0 0 0 0 0 211 127 17 17 23 451 10 16 5 144 222 0 0 t 0 0 0 0 0 0 83 51 8 7 117 10 17 5 7 83 59 0 0

oligos_7nt_mkv4_m3_rc_shift4 (oligos_7nt_mkv4_m3_rc)
; positions_6nt_m3 versus oligos_7nt_mkv4_m3_rc; m=16/18; ncol2=12; w=0; offset=3; strand=R; shift=4; score=0.521866; ----brGACTTGTCyr--- ; cor=; Ncor= a 0 0 0 0 74 145 19 391 4 105 3 4 5 17 64 131 0 0 0 c 0 0 0 0 132 27 7 12 442 8 9 11 79 389 177 75 0 0 0 g 0 0 0 0 126 182 415 40 1 22 6 429 14 19 38 148 0 0 0 t 0 0 0 0 119 97 10 8 4 316 433 7 353 26 172 97 0 0 0

oligos_6nt_mkv3_m2_rc_shift4 (oligos_6nt_mkv3_m2_rc)
; positions_6nt_m3 versus oligos_6nt_mkv3_m2_rc; m=17/18; ncol2=12; w=0; offset=3; strand=R; shift=4; score=0.515839; ----srGACTTGTcyd--- ; cor=; Ncor= a 0 0 0 0 111 185 22 548 9 138 5 5 24 91 104 159 0 0 0 c 0 0 0 0 172 54 6 6 560 15 9 12 116 350 209 108 0 0 0 g 0 0 0 0 157 202 535 16 7 24 11 557 44 59 70 168 0 0 0 t 0 0 0 0 141 140 18 11 5 404 556 7 397 81 198 146 0 0 0

oligos_7nt_mkv4_m2_shift0 (oligos_7nt_mkv4_m2)
; positions_6nt_m3 versus oligos_7nt_mkv4_m2; m=18/18; ncol2=12; w=-1; offset=-1; strand=D; shift=0; score=0.470932; tgCCCAGACAtg------- ; cor=; Ncor= a 115 78 22 24 13 580 21 494 21 602 145 125 0 0 0 0 0 0 0 c 108 128 556 594 620 9 21 32 586 17 125 80 0 0 0 0 0 0 0 g 99 362 23 6 1 19 595 106 30 7 127 366 0 0 0 0 0 0 0 t 327 81 48 25 15 41 12 17 12 23 252 78 0 0 0 0 0 0 0

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv4_m3_shift11 ; 17 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv4_m3_shift11 (oligos_7nt_mkv4_m3)
; oligos_7nt_mkv4_m3; m=0 (reference); ncol1=12; shift=11; ncol=23; -----------yrGACAAGTCyv ; Alignment reference a 0 0 0 0 0 0 0 0 0 0 0 97 172 26 353 7 433 316 4 8 10 97 119 c 0 0 0 0 0 0 0 0 0 0 0 148 38 19 14 429 6 22 1 40 415 182 126 g 0 0 0 0 0 0 0 0 0 0 0 75 177 389 79 11 9 8 442 12 7 27 132 t 0 0 0 0 0 0 0 0 0 0 0 131 64 17 5 4 3 105 4 391 19 145 74

oligos_7nt_mkv4_m3_shift11 (oligos_7nt_mkv4_m3)
; oligos_7nt_mkv4_m3 versus oligos_7nt_mkv4_m3; m=1/16; ncol2=12; w=0; offset=0; strand=D; shift=11; score= 1; -----------yrGACAAGTCyv ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 97 172 26 353 7 433 316 4 8 10 97 119 c 0 0 0 0 0 0 0 0 0 0 0 148 38 19 14 429 6 22 1 40 415 182 126 g 0 0 0 0 0 0 0 0 0 0 0 75 177 389 79 11 9 8 442 12 7 27 132 t 0 0 0 0 0 0 0 0 0 0 0 131 64 17 5 4 3 105 4 391 19 145 74

oligos_6nt_mkv3_m2_shift11 (oligos_6nt_mkv3_m2)
; oligos_7nt_mkv4_m3 versus oligos_6nt_mkv3_m2; m=2/16; ncol2=12; w=0; offset=0; strand=D; shift=11; score=0.985996; -----------hrgACAAGTCys ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 146 198 81 397 7 556 404 5 11 18 140 141 c 0 0 0 0 0 0 0 0 0 0 0 168 70 59 44 557 11 24 7 16 535 202 157 g 0 0 0 0 0 0 0 0 0 0 0 108 209 350 116 12 9 15 560 6 6 54 172 t 0 0 0 0 0 0 0 0 0 0 0 159 104 91 24 5 5 138 9 548 22 185 111

oligos_7nt_mkv4_m5_rc_shift11 (oligos_7nt_mkv4_m5_rc)
; oligos_7nt_mkv4_m3 versus oligos_7nt_mkv4_m5_rc; m=3/16; ncol2=12; w=0; offset=0; strand=R; shift=11; score=0.886954; -----------yrGGCAwGTCys ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 111 202 19 50 8 560 355 1 17 8 125 113 c 0 0 0 0 0 0 0 0 0 0 0 194 34 14 14 573 12 16 14 45 555 229 178 g 0 0 0 0 0 0 0 0 0 0 0 84 272 549 528 11 10 26 577 12 11 43 189 t 0 0 0 0 0 0 0 0 0 0 0 208 89 15 5 5 15 200 5 523 23 200 117

oligos_6nt_mkv3_m3_rc_shift10 (oligos_6nt_mkv3_m3_rc)
; oligos_7nt_mkv4_m3 versus oligos_6nt_mkv3_m3_rc; m=4/16; ncol2=14; w=-1; offset=-1; strand=R; shift=10; score=0.763174; ----------cyrGACATGTCyr ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 145 169 237 64 626 10 750 38 5 14 26 105 243 c 0 0 0 0 0 0 0 0 0 0 323 260 42 25 8 790 8 19 10 167 700 431 143 g 0 0 0 0 0 0 0 0 0 0 172 143 431 700 167 10 19 8 791 8 25 42 259 t 0 0 0 0 0 0 0 0 0 0 175 243 105 26 14 5 38 750 9 626 64 237 170

positions_6nt_m4_rc_shift9 (positions_6nt_m4_rc)
; oligos_7nt_mkv4_m3 versus positions_6nt_m4_rc; m=5/16; ncol2=16; w=-2; offset=-2; strand=R; shift=9; score=0.651321; ---------ycygGACATGTCcr ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 97 141 121 176 66 547 14 695 31 7 15 32 69 326 c 0 0 0 0 0 0 0 0 0 272 302 192 31 20 10 713 7 12 11 173 627 469 105 g 0 0 0 0 0 0 0 0 0 98 163 105 469 627 173 11 12 7 714 10 20 31 192 t 0 0 0 0 0 0 0 0 0 278 139 327 69 32 15 7 31 695 13 547 66 176 122

positions_6nt_m5_shift10 (positions_6nt_m5)
; oligos_7nt_mkv4_m3 versus positions_6nt_m5; m=6/16; ncol2=15; w=-1; offset=-1; strand=D; shift=10; score=0.641732; ----------cyrGGCATGTCya ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 91 115 289 25 110 3 676 29 6 15 22 54 305 c 0 0 0 0 0 0 0 0 0 0 329 261 37 10 9 720 18 14 8 129 613 441 126 g 0 0 0 0 0 0 0 0 0 0 172 87 340 685 598 8 17 14 714 13 36 35 172 t 0 0 0 0 0 0 0 0 0 0 142 271 68 14 17 3 23 677 6 577 63 204 131

positions_7nt_m4_shift10 (positions_7nt_m4)
; oligos_7nt_mkv4_m3 versus positions_7nt_m4; m=7/16; ncol2=15; w=-1; offset=-1; strand=D; shift=10; score=0.625124; ----------cyrGGCATGTCTg ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 87 99 288 33 94 7 571 24 9 8 17 45 86 c 0 0 0 0 0 0 0 0 0 0 265 237 22 10 7 587 13 14 6 79 507 112 64 g 0 0 0 0 0 0 0 0 0 0 146 82 255 553 507 12 7 14 593 7 37 30 372 t 0 0 0 0 0 0 0 0 0 0 118 198 51 20 8 10 25 564 8 522 55 429 94

positions_7nt_m3_shift9 (positions_7nt_m3)
; oligos_7nt_mkv4_m3 versus positions_7nt_m3; m=8/16; ncol2=16; w=-2; offset=-2; strand=D; shift=9; score=0.619775; ---------yyCAGACATGTCTG ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 35 58 37 231 15 234 7 289 15 2 6 11 22 38 c 0 0 0 0 0 0 0 0 0 120 124 221 11 7 5 306 8 4 1 71 283 52 20 g 0 0 0 0 0 0 0 0 0 37 52 20 52 283 71 1 4 8 306 5 7 11 221 t 0 0 0 0 0 0 0 0 0 124 82 38 22 11 6 2 15 289 7 234 15 231 37

positions_6nt_m2_rc_shift8 (positions_6nt_m2_rc)
; oligos_7nt_mkv4_m3 versus positions_6nt_m2_rc; m=9/16; ncol2=15; w=-3; offset=-3; strand=R; shift=8; score=0.587531; --------gyctGGGCATGTyyg ; cor=; Ncor= a 0 0 0 0 0 0 0 0 88 98 79 98 123 21 93 15 773 55 9 13 71 130 207 c 0 0 0 0 0 0 0 0 123 296 552 180 12 17 7 809 23 21 18 75 368 310 197 g 0 0 0 0 0 0 0 0 454 136 127 68 671 763 725 6 13 36 812 22 111 121 255 t 0 0 0 0 0 0 0 0 181 316 88 500 40 45 21 16 37 734 7 736 296 285 187

positions_7nt_m2_shift8 (positions_7nt_m2)
; oligos_7nt_mkv4_m3 versus positions_7nt_m2; m=10/16; ncol2=16; w=-3; offset=-3; strand=D; shift=8; score=0.580165; --------gyctGGGCATGTCyr ; cor=; Ncor= a 0 0 0 0 0 0 0 0 87 95 75 86 98 30 99 7 744 68 11 12 36 94 231 c 0 0 0 0 0 0 0 0 149 302 475 169 18 23 12 799 20 17 19 135 612 452 182 g 0 0 0 0 0 0 0 0 419 110 166 70 668 740 699 6 18 33 788 19 67 44 240 t 0 0 0 0 0 0 0 0 167 315 106 497 38 29 12 10 40 704 4 656 107 232 169

oligos_7nt_mkv4_m4_shift13 (oligos_7nt_mkv4_m4)
; oligos_7nt_mkv4_m3 versus oligos_7nt_mkv4_m4; m=11/16; ncol2=11; w=0; offset=2; strand=D; shift=13; score=0.561598; -------------grCAaGCCCr ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 0 0 92 199 5 420 302 5 7 6 4 148 c 0 0 0 0 0 0 0 0 0 0 0 0 0 91 100 447 33 35 11 443 450 461 102 g 0 0 0 0 0 0 0 0 0 0 0 0 0 211 127 17 17 23 451 10 16 5 144 t 0 0 0 0 0 0 0 0 0 0 0 0 0 83 51 8 7 117 10 17 5 7 83

positions_6nt_m1_rc_shift8 (positions_6nt_m1_rc)
; oligos_7nt_mkv4_m3 versus positions_6nt_m1_rc; m=12/16; ncol2=17; w=-3; offset=-3; strand=R; shift=8; score=0.555901; --------gyctGGGCATGTCyr ; cor=; Ncor= a 0 0 0 0 0 0 0 0 83 77 66 91 124 36 108 4 730 64 5 13 32 91 283 c 0 0 0 0 0 0 0 0 135 297 475 193 21 15 10 778 19 14 17 139 634 430 144 g 0 0 0 0 0 0 0 0 417 111 153 67 608 726 658 6 14 19 769 21 48 43 218 t 0 0 0 0 0 0 0 0 160 310 101 444 42 18 19 7 32 698 4 622 81 231 150

positions_7nt_m1_rc_shift8 (positions_7nt_m1_rc)
; oligos_7nt_mkv4_m3 versus positions_7nt_m1_rc; m=13/16; ncol2=17; w=-3; offset=-3; strand=R; shift=8; score=0.536667; --------gyctGGGCATGTCtg ; cor=; Ncor= a 0 0 0 0 0 0 0 0 75 80 73 81 90 33 100 5 650 54 7 9 33 82 109 c 0 0 0 0 0 0 0 0 117 231 401 133 13 18 5 695 15 14 13 115 537 142 112 g 0 0 0 0 0 0 0 0 365 99 143 53 584 620 592 5 11 35 686 12 70 41 386 t 0 0 0 0 0 0 0 0 157 304 97 447 27 43 17 9 38 611 8 578 74 449 107

positions_6nt_m3_rc_shift8 (positions_6nt_m3_rc)
; oligos_7nt_mkv4_m3 versus positions_6nt_m3_rc; m=14/16; ncol2=18; w=-3; offset=-3; strand=R; shift=8; score=0.521866; --------gyctGGGCATGTCyg ; cor=; Ncor= a 0 0 0 0 0 0 0 0 95 97 71 111 137 34 117 5 779 69 9 12 28 103 190 c 0 0 0 0 0 0 0 0 159 312 504 196 27 23 10 847 23 19 14 157 714 270 149 g 0 0 0 0 0 0 0 0 430 117 175 82 662 769 728 8 17 36 837 19 56 54 399 t 0 0 0 0 0 0 0 0 186 344 120 481 44 44 15 10 51 746 10 682 72 443 132

oligos_7nt_mkv4_m1_rc_shift5 (oligos_7nt_mkv4_m1_rc)
; oligos_7nt_mkv4_m3 versus oligos_7nt_mkv4_m1_rc; m=15/16; ncol2=19; w=-6; offset=-6; strand=R; shift=5; score=0.484815; -----CwtGyCTGGGCATGTCcm ; cor=; Ncor= a 0 0 0 0 0 60 285 67 29 19 23 36 56 25 106 3 504 58 6 14 31 68 167 c 0 0 0 0 0 398 77 39 44 361 496 116 11 8 6 572 23 20 15 126 416 356 157 g 0 0 0 0 0 57 64 82 463 34 31 17 500 531 466 4 16 24 557 16 41 31 138 t 0 0 0 0 0 70 159 397 49 171 35 416 18 21 7 6 42 483 7 429 97 130 123

oligos_6nt_mkv3_m1_shift0 (oligos_6nt_mkv3_m1)
; oligos_7nt_mkv4_m3 versus oligos_6nt_mkv3_m1; m=16/16; ncol2=24; w=-11; offset=-11; strand=D; shift=0; score=0.419172; skrGrCATGyCCrGrCATGyCym ; cor=; Ncor= a 110 103 155 91 354 5 435 53 5 15 25 27 331 33 196 3 497 106 20 26 44 66 171 c 149 139 33 22 15 542 20 8 2 387 508 390 16 7 6 565 22 17 11 196 420 315 154 g 202 163 304 416 178 9 17 22 563 4 5 13 192 513 358 3 10 28 535 22 25 38 136 t 112 168 81 44 26 17 101 490 3 167 35 143 34 20 13 2 44 422 7 329 84 154 112

One-to-n matrix alignment; reference matrix: positions_6nt_m5_shift5 ; 18 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
positions_6nt_m5_shift5 (positions_6nt_m5)
; positions_6nt_m5; m=0 (reference); ncol1=15; shift=5; ncol=20; -----cyrGGCATGTCyagr ; Alignment reference a 0 0 0 0 0 91 115 289 25 110 3 676 29 6 15 22 54 305 134 257 c 0 0 0 0 0 329 261 37 10 9 720 18 14 8 129 613 441 126 154 76 g 0 0 0 0 0 172 87 340 685 598 8 17 14 714 13 36 35 172 316 309 t 0 0 0 0 0 142 271 68 14 17 3 23 677 6 577 63 204 131 130 92

positions_6nt_m5_shift5 (positions_6nt_m5)
; positions_6nt_m5 versus positions_6nt_m5; m=1/17; ncol2=15; w=0; offset=0; strand=D; shift=5; score= 1; -----cyrGGCATGTCyagr ; cor=; Ncor= a 0 0 0 0 0 91 115 289 25 110 3 676 29 6 15 22 54 305 134 257 c 0 0 0 0 0 329 261 37 10 9 720 18 14 8 129 613 441 126 154 76 g 0 0 0 0 0 172 87 340 685 598 8 17 14 714 13 36 35 172 316 309 t 0 0 0 0 0 142 271 68 14 17 3 23 677 6 577 63 204 131 130 92

positions_7nt_m4_shift5 (positions_7nt_m4)
; positions_6nt_m5 versus positions_7nt_m4; m=2/17; ncol2=15; w=0; offset=0; strand=D; shift=5; score=0.942295; -----cyrGGCATGTCTggr ; cor=; Ncor= a 0 0 0 0 0 87 99 288 33 94 7 571 24 9 8 17 45 86 141 191 c 0 0 0 0 0 265 237 22 10 7 587 13 14 6 79 507 112 64 84 55 g 0 0 0 0 0 146 82 255 553 507 12 7 14 593 7 37 30 372 280 296 t 0 0 0 0 0 118 198 51 20 8 10 25 564 8 522 55 429 94 111 74

positions_6nt_m4_shift4 (positions_6nt_m4)
; positions_6nt_m5 versus positions_6nt_m4; m=3/17; ncol2=16; w=-1; offset=-1; strand=D; shift=4; score=0.864069; ----ycygGACATGTCcrgr ; cor=; Ncor= a 0 0 0 0 97 140 122 176 66 547 13 695 31 7 15 32 69 327 139 278 c 0 0 0 0 272 302 192 31 20 10 714 7 12 11 173 627 469 105 163 98 g 0 0 0 0 98 164 105 469 627 173 11 12 7 713 10 20 31 192 302 272 t 0 0 0 0 278 139 326 69 32 15 7 31 695 14 547 66 176 121 141 97

positions_6nt_m1_rc_shift3 (positions_6nt_m1_rc)
; positions_6nt_m5 versus positions_6nt_m1_rc; m=4/17; ncol2=17; w=-2; offset=-2; strand=R; shift=3; score=0.861126; ---gyctGGGCATGTCyrgr ; cor=; Ncor= a 0 0 0 83 77 66 91 124 36 108 4 730 64 5 13 32 91 283 141 255 c 0 0 0 135 297 475 193 21 15 10 778 19 14 17 139 634 430 144 181 91 g 0 0 0 417 111 153 67 608 726 658 6 14 19 769 21 48 43 218 337 323 t 0 0 0 160 310 101 444 42 18 19 7 32 698 4 622 81 231 150 136 126

oligos_6nt_mkv3_m3_rc_shift5 (oligos_6nt_mkv3_m3_rc)
; positions_6nt_m5 versus oligos_6nt_mkv3_m3_rc; m=5/17; ncol2=14; w=0; offset=0; strand=R; shift=5; score=0.854151; -----cyrGACATGTCyrg- ; cor=; Ncor= a 0 0 0 0 0 145 169 237 64 626 10 750 38 5 14 26 105 243 175 0 c 0 0 0 0 0 323 260 42 25 8 790 8 19 10 167 700 431 143 173 0 g 0 0 0 0 0 172 143 431 700 167 10 19 8 791 8 25 42 259 323 0 t 0 0 0 0 0 175 243 105 26 14 5 38 750 9 626 64 237 170 144 0

positions_7nt_m1_rc_shift3 (positions_7nt_m1_rc)
; positions_6nt_m5 versus positions_7nt_m1_rc; m=6/17; ncol2=17; w=-2; offset=-2; strand=R; shift=3; score=0.815553; ---gyctGGGCATGTCtggr ; cor=; Ncor= a 0 0 0 75 80 73 81 90 33 100 5 650 54 7 9 33 82 109 133 213 c 0 0 0 117 231 401 133 13 18 5 695 15 14 13 115 537 142 112 151 80 g 0 0 0 365 99 143 53 584 620 592 5 11 35 686 12 70 41 386 303 310 t 0 0 0 157 304 97 447 27 43 17 9 38 611 8 578 74 449 107 127 111

positions_6nt_m3_rc_shift3 (positions_6nt_m3_rc)
; positions_6nt_m5 versus positions_6nt_m3_rc; m=7/17; ncol2=18; w=-2; offset=-2; strand=R; shift=3; score=0.795268; ---gyctGGGCATGTCyggr ; cor=; Ncor= a 0 0 0 95 97 71 111 137 34 117 5 779 69 9 12 28 103 190 146 265 c 0 0 0 159 312 504 196 27 23 10 847 23 19 14 157 714 270 149 160 91 g 0 0 0 430 117 175 82 662 769 728 8 17 36 837 19 56 54 399 435 394 t 0 0 0 186 344 120 481 44 44 15 10 51 746 10 682 72 443 132 129 120

positions_7nt_m2_shift3 (positions_7nt_m2)
; positions_6nt_m5 versus positions_7nt_m2; m=8/17; ncol2=16; w=-2; offset=-2; strand=D; shift=3; score=0.794631; ---gyctGGGCATGTCyrg- ; cor=; Ncor= a 0 0 0 87 95 75 86 98 30 99 7 744 68 11 12 36 94 231 151 0 c 0 0 0 149 302 475 169 18 23 12 799 20 17 19 135 612 452 182 198 0 g 0 0 0 419 110 166 70 668 740 699 6 18 33 788 19 67 44 240 333 0 t 0 0 0 167 315 106 497 38 29 12 10 40 704 4 656 107 232 169 140 0

positions_7nt_m3_shift4 (positions_7nt_m3)
; positions_6nt_m5 versus positions_7nt_m3; m=9/17; ncol2=16; w=-1; offset=-1; strand=D; shift=4; score=0.778644; ----yyCAGACATGTCTGrr ; cor=; Ncor= a 0 0 0 0 35 58 37 231 15 234 7 289 15 2 6 11 22 38 82 124 c 0 0 0 0 120 124 221 11 7 5 306 8 4 1 71 283 52 20 52 37 g 0 0 0 0 37 52 20 52 283 71 1 4 8 306 5 7 11 221 124 120 t 0 0 0 0 124 82 38 22 11 6 2 15 289 7 234 15 231 37 58 35

positions_7nt_m5_rc_shift3 (positions_7nt_m5_rc)
; positions_6nt_m5 versus positions_7nt_m5_rc; m=10/17; ncol2=18; w=-2; offset=-2; strand=R; shift=3; score=0.746695; ---gyctGGGCATGCCCagr ; cor=; Ncor= a 0 0 0 62 46 57 48 61 22 105 4 449 20 2 6 30 16 302 44 179 c 0 0 0 93 212 308 114 14 15 22 489 22 12 8 369 435 412 38 94 66 g 0 0 0 265 66 94 38 412 436 370 8 12 22 489 22 15 14 114 308 212 t 0 0 0 83 179 44 303 16 30 6 2 20 449 4 106 23 61 49 57 46

oligos_7nt_mkv4_m5_rc_shift6 (oligos_7nt_mkv4_m5_rc)
; positions_6nt_m5 versus oligos_7nt_mkv4_m5_rc; m=11/17; ncol2=12; w=0; offset=1; strand=R; shift=6; score=0.729803; ------yrGGCAwGTCys-- ; cor=; Ncor= a 0 0 0 0 0 0 111 202 19 50 8 560 355 1 17 8 125 113 0 0 c 0 0 0 0 0 0 194 34 14 14 573 12 16 14 45 555 229 178 0 0 g 0 0 0 0 0 0 84 272 549 528 11 10 26 577 12 11 43 189 0 0 t 0 0 0 0 0 0 208 89 15 5 5 15 200 5 523 23 200 117 0 0

positions_6nt_m2_rc_shift3 (positions_6nt_m2_rc)
; positions_6nt_m5 versus positions_6nt_m2_rc; m=12/17; ncol2=15; w=-2; offset=-2; strand=R; shift=3; score=0.712139; ---gyctGGGCATGTyyg-- ; cor=; Ncor= a 0 0 0 88 98 79 98 123 21 93 15 773 55 9 13 71 130 207 0 0 c 0 0 0 123 296 552 180 12 17 7 809 23 21 18 75 368 310 197 0 0 g 0 0 0 454 136 127 68 671 763 725 6 13 36 812 22 111 121 255 0 0 t 0 0 0 181 316 88 500 40 45 21 16 37 734 7 736 296 285 187 0 0

oligos_7nt_mkv4_m1_rc_shift0 (oligos_7nt_mkv4_m1_rc)
; positions_6nt_m5 versus oligos_7nt_mkv4_m1_rc; m=13/17; ncol2=19; w=-5; offset=-5; strand=R; shift=0; score=0.651818; CwtGyCTGGGCATGTCcms- ; cor=; Ncor= a 60 285 67 29 19 23 36 56 25 106 3 504 58 6 14 31 68 167 98 0 c 398 77 39 44 361 496 116 11 8 6 572 23 20 15 126 416 356 157 185 0 g 57 64 82 463 34 31 17 500 531 466 4 16 24 557 16 41 31 138 196 0 t 70 159 397 49 171 35 416 18 21 7 6 42 483 7 429 97 130 123 106 0

oligos_7nt_mkv4_m3_shift6 (oligos_7nt_mkv4_m3)
; positions_6nt_m5 versus oligos_7nt_mkv4_m3; m=14/17; ncol2=12; w=0; offset=1; strand=D; shift=6; score=0.641732; ------yrGACAAGTCyv-- ; cor=; Ncor= a 0 0 0 0 0 0 97 172 26 353 7 433 316 4 8 10 97 119 0 0 c 0 0 0 0 0 0 148 38 19 14 429 6 22 1 40 415 182 126 0 0 g 0 0 0 0 0 0 75 177 389 79 11 9 8 442 12 7 27 132 0 0 t 0 0 0 0 0 0 131 64 17 5 4 3 105 4 391 19 145 74 0 0

oligos_6nt_mkv3_m2_shift6 (oligos_6nt_mkv3_m2)
; positions_6nt_m5 versus oligos_6nt_mkv3_m2; m=15/17; ncol2=12; w=0; offset=1; strand=D; shift=6; score=0.628507; ------hrgACAAGTCys-- ; cor=; Ncor= a 0 0 0 0 0 0 146 198 81 397 7 556 404 5 11 18 140 141 0 0 c 0 0 0 0 0 0 168 70 59 44 557 11 24 7 16 535 202 157 0 0 g 0 0 0 0 0 0 108 209 350 116 12 9 15 560 6 6 54 172 0 0 t 0 0 0 0 0 0 159 104 91 24 5 5 138 9 548 22 185 111 0 0

oligos_7nt_mkv4_m4_rc_shift5 (oligos_7nt_mkv4_m4_rc)
; positions_6nt_m5 versus oligos_7nt_mkv4_m4_rc; m=16/17; ncol2=11; w=0; offset=0; strand=R; shift=5; score=0.59655; -----syGGGCtTGyc---- ; cor=; Ncor= a 0 0 0 0 0 59 83 7 5 17 10 117 7 8 51 83 0 0 0 0 c 0 0 0 0 0 222 144 5 16 10 451 23 17 17 127 211 0 0 0 0 g 0 0 0 0 0 137 102 461 450 443 11 35 33 447 100 91 0 0 0 0 t 0 0 0 0 0 59 148 4 6 7 5 302 420 5 199 92 0 0 0 0

oligos_6nt_mkv3_m1_shift5 (oligos_6nt_mkv3_m1)
; positions_6nt_m5 versus oligos_6nt_mkv3_m1; m=17/17; ncol2=24; w=0; offset=0; strand=D; shift=5; score=0.523672; -----skrGrCATGyCCrGr ; cor=; Ncor= a 0 0 0 0 0 110 103 155 91 354 5 435 53 5 15 25 27 331 33 196 c 0 0 0 0 0 149 139 33 22 15 542 20 8 2 387 508 390 16 7 6 g 0 0 0 0 0 202 163 304 416 178 9 17 22 563 4 5 13 192 513 358 t 0 0 0 0 0 112 168 81 44 26 17 101 490 3 167 35 143 34 20 13

One-to-n matrix alignment; reference matrix: positions_6nt_m4_shift1 ; 18 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
positions_6nt_m4_shift1 (positions_6nt_m4)
; positions_6nt_m4; m=0 (reference); ncol1=16; shift=1; ncol=17; -ycygGACATGTCcrgr ; Alignment reference a 0 97 140 122 176 66 547 13 695 31 7 15 32 69 327 139 278 c 0 272 302 192 31 20 10 714 7 12 11 173 627 469 105 163 98 g 0 98 164 105 469 627 173 11 12 7 713 10 20 31 192 302 272 t 0 278 139 326 69 32 15 7 31 695 14 547 66 176 121 141 97

positions_6nt_m4_shift1 (positions_6nt_m4)
; positions_6nt_m4 versus positions_6nt_m4; m=1/17; ncol2=16; w=0; offset=0; strand=D; shift=1; score= 1; -ycygGACATGTCcrgr ; cor=; Ncor= a 0 97 140 122 176 66 547 13 695 31 7 15 32 69 327 139 278 c 0 272 302 192 31 20 10 714 7 12 11 173 627 469 105 163 98 g 0 98 164 105 469 627 173 11 12 7 713 10 20 31 192 302 272 t 0 278 139 326 69 32 15 7 31 695 14 547 66 176 121 141 97

oligos_6nt_mkv3_m3_shift2 (oligos_6nt_mkv3_m3)
; positions_6nt_m4 versus oligos_6nt_mkv3_m3; m=2/17; ncol2=14; w=0; offset=1; strand=D; shift=2; score=0.86677; --cyrGACATGTCyrg- ; cor=; Ncor= a 0 0 144 170 237 64 626 9 750 38 5 14 26 105 243 175 0 c 0 0 323 259 42 25 8 791 8 19 10 167 700 431 143 172 0 g 0 0 173 143 431 700 167 10 19 8 790 8 25 42 260 323 0 t 0 0 175 243 105 26 14 5 38 750 10 626 64 237 169 145 0

positions_6nt_m5_shift2 (positions_6nt_m5)
; positions_6nt_m4 versus positions_6nt_m5; m=3/17; ncol2=15; w=0; offset=1; strand=D; shift=2; score=0.864069; --cyrGGCATGTCyagr ; cor=; Ncor= a 0 0 91 115 289 25 110 3 676 29 6 15 22 54 305 134 257 c 0 0 329 261 37 10 9 720 18 14 8 129 613 441 126 154 76 g 0 0 172 87 340 685 598 8 17 14 714 13 36 35 172 316 309 t 0 0 142 271 68 14 17 3 23 677 6 577 63 204 131 130 92

positions_6nt_m1_shift1 (positions_6nt_m1)
; positions_6nt_m4 versus positions_6nt_m1; m=4/17; ncol2=17; w=0; offset=0; strand=D; shift=1; score=0.862943; -ycyrGACATGCCCagr ; cor=; Ncor= a 0 126 136 150 231 81 622 4 698 32 7 19 18 42 444 101 310 c 0 323 337 218 43 48 21 769 19 14 6 658 726 608 67 153 111 g 0 91 181 144 430 634 139 17 14 19 778 10 15 21 193 475 297 t 0 255 141 283 91 32 13 5 64 730 4 108 36 124 91 66 77

positions_7nt_m3_shift1 (positions_7nt_m3)
; positions_6nt_m4 versus positions_7nt_m3; m=5/17; ncol2=16; w=0; offset=0; strand=D; shift=1; score=0.856266; -yyCAGACATGTCTGrr ; cor=; Ncor= a 0 35 58 37 231 15 234 7 289 15 2 6 11 22 38 82 124 c 0 120 124 221 11 7 5 306 8 4 1 71 283 52 20 52 37 g 0 37 52 20 52 283 71 1 4 8 306 5 7 11 221 124 120 t 0 124 82 38 22 11 6 2 15 289 7 234 15 231 37 58 35

positions_7nt_m1_shift1 (positions_7nt_m1)
; positions_6nt_m4 versus positions_7nt_m1; m=6/17; ncol2=17; w=0; offset=0; strand=D; shift=1; score=0.815107; -yccaGACATGCCCagr ; cor=; Ncor= a 0 111 127 107 449 74 578 8 611 38 9 17 43 27 447 97 304 c 0 310 303 386 41 70 12 686 35 11 5 592 620 584 53 143 99 g 0 80 151 112 142 537 115 13 14 15 695 5 18 13 133 401 231 t 0 213 133 109 82 33 9 7 54 650 5 100 33 90 81 73 80

positions_7nt_m4_rc_shift1 (positions_7nt_m4_rc)
; positions_6nt_m4 versus positions_7nt_m4_rc; m=7/17; ncol2=15; w=0; offset=0; strand=R; shift=1; score=0.799716; -yccAGACATGCCyrg- ; cor=; Ncor= a 0 74 111 94 429 55 522 8 564 25 10 8 20 51 198 118 0 c 0 296 280 372 30 37 7 593 14 7 12 507 553 255 82 146 0 g 0 55 84 64 112 507 79 6 14 13 587 7 10 22 237 265 0 t 0 191 141 86 45 17 8 9 24 571 7 94 33 288 99 87 0

positions_7nt_m2_rc_shift2 (positions_7nt_m2_rc)
; positions_6nt_m4 versus positions_7nt_m2_rc; m=8/17; ncol2=16; w=0; offset=1; strand=R; shift=2; score=0.797936; --cyrGACATGCCCagr ; cor=; Ncor= a 0 0 140 169 232 107 656 4 704 40 10 12 29 38 497 106 315 c 0 0 333 240 44 67 19 788 33 18 6 699 740 668 70 166 110 g 0 0 198 182 452 612 135 19 17 20 799 12 23 18 169 475 302 t 0 0 151 231 94 36 12 11 68 744 7 99 30 98 86 75 95

positions_6nt_m3_shift0 (positions_6nt_m3)
; positions_6nt_m4 versus positions_6nt_m3; m=9/17; ncol2=18; w=-1; offset=-1; strand=D; shift=0; score= 0.7915; gyccrGACATGCCCagr ; cor=; Ncor= a 92 120 129 132 443 72 682 10 746 51 10 15 44 44 481 120 344 c 187 394 435 399 54 56 19 837 36 17 8 728 769 662 82 175 117 g 472 91 160 149 270 714 157 14 19 23 847 10 23 27 196 504 312 t 119 265 146 190 103 28 12 9 69 779 5 117 34 137 111 71 97

positions_7nt_m5_shift0 (positions_7nt_m5)
; positions_6nt_m4 versus positions_7nt_m5; m=10/17; ncol2=18; w=-1; offset=-1; strand=D; shift=0; score=0.779474; gyctGGGCATGCCCagr ; cor=; Ncor= a 62 46 57 49 61 23 106 4 449 20 2 6 30 16 303 44 179 c 94 212 308 114 14 15 22 489 22 12 8 370 436 412 38 94 66 g 264 66 94 38 412 435 369 8 12 22 489 22 15 14 114 308 212 t 83 179 44 302 16 30 6 2 20 449 4 105 22 61 48 57 46

positions_6nt_m2_shift3 (positions_6nt_m2)
; positions_6nt_m4 versus positions_6nt_m2; m=11/17; ncol2=15; w=0; offset=2; strand=D; shift=3; score=0.708081; ---crrACATGCCCagr ; cor=; Ncor= a 0 0 0 187 285 296 736 7 734 37 16 21 45 40 500 88 316 c 0 0 0 255 121 111 22 812 36 13 6 725 763 671 68 127 136 g 0 0 0 197 310 368 75 18 21 23 809 7 17 12 180 552 296 t 0 0 0 207 130 71 13 9 55 773 15 93 21 123 98 79 98

oligos_7nt_mkv4_m1_shift2 (oligos_7nt_mkv4_m1)
; positions_6nt_m4 versus oligos_7nt_mkv4_m1; m=12/17; ncol2=19; w=0; offset=1; strand=D; shift=2; score=0.66167; --skgGACATGCCCAGr ; cor=; Ncor= a 0 0 106 123 130 97 429 7 483 42 6 7 21 18 416 35 171 c 0 0 196 138 31 41 16 557 24 16 4 466 531 500 17 31 34 g 0 0 185 157 356 416 126 15 20 23 572 6 8 11 116 496 361 t 0 0 98 167 68 31 14 6 58 504 3 106 25 56 36 23 19

oligos_7nt_mkv4_m3_rc_shift3 (oligos_7nt_mkv4_m3_rc)
; positions_6nt_m4 versus oligos_7nt_mkv4_m3_rc; m=13/17; ncol2=12; w=0; offset=2; strand=R; shift=3; score=0.651321; ---brGACTTGTCyr-- ; cor=; Ncor= a 0 0 0 74 145 19 391 4 105 3 4 5 17 64 131 0 0 c 0 0 0 132 27 7 12 442 8 9 11 79 389 177 75 0 0 g 0 0 0 126 182 415 40 1 22 6 429 14 19 38 148 0 0 t 0 0 0 119 97 10 8 4 316 433 7 353 26 172 97 0 0

oligos_6nt_mkv3_m2_shift3 (oligos_6nt_mkv3_m2)
; positions_6nt_m4 versus oligos_6nt_mkv3_m2; m=14/17; ncol2=12; w=0; offset=2; strand=D; shift=3; score=0.632837; ---hrgACAAGTCys-- ; cor=; Ncor= a 0 0 0 146 198 81 397 7 556 404 5 11 18 140 141 0 0 c 0 0 0 168 70 59 44 557 11 24 7 16 535 202 157 0 0 g 0 0 0 108 209 350 116 12 9 15 560 6 6 54 172 0 0 t 0 0 0 159 104 91 24 5 5 138 9 548 22 185 111 0 0

oligos_7nt_mkv4_m5_shift3 (oligos_7nt_mkv4_m5)
; positions_6nt_m4 versus oligos_7nt_mkv4_m5; m=15/17; ncol2=12; w=0; offset=2; strand=D; shift=3; score=0.605758; ---srGACwTGCCyr-- ; cor=; Ncor= a 0 0 0 117 200 23 523 5 200 15 5 5 15 89 208 0 0 c 0 0 0 189 43 11 12 577 26 10 11 528 549 272 84 0 0 g 0 0 0 178 229 555 45 14 16 12 573 14 14 34 194 0 0 t 0 0 0 113 125 8 17 1 355 560 8 50 19 202 111 0 0

oligos_6nt_mkv3_m1_shift2 (oligos_6nt_mkv3_m1)
; positions_6nt_m4 versus oligos_6nt_mkv3_m1; m=16/17; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.535689; --skrGrCATGyCCrGr ; cor=; Ncor= a 0 0 110 103 155 91 354 5 435 53 5 15 25 27 331 33 196 c 0 0 149 139 33 22 15 542 20 8 2 387 508 390 16 7 6 g 0 0 202 163 304 416 178 9 17 22 563 4 5 13 192 513 358 t 0 0 112 168 81 44 26 17 101 490 3 167 35 143 34 20 13

oligos_7nt_mkv4_m4_rc_shift2 (oligos_7nt_mkv4_m4_rc)
; positions_6nt_m4 versus oligos_7nt_mkv4_m4_rc; m=17/17; ncol2=11; w=0; offset=1; strand=R; shift=2; score=0.497501; --syGGGCtTGyc---- ; cor=; Ncor= a 0 0 59 83 7 5 17 10 117 7 8 51 83 0 0 0 0 c 0 0 222 144 5 16 10 451 23 17 17 127 211 0 0 0 0 g 0 0 137 102 461 450 443 11 35 33 447 100 91 0 0 0 0 t 0 0 59 148 4 6 7 5 302 420 5 199 92 0 0 0 0

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv4_m5_shift3 ; 18 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv4_m5_shift3 (oligos_7nt_mkv4_m5)
; oligos_7nt_mkv4_m5; m=0 (reference); ncol1=12; shift=3; ncol=15; ---srGACwTGCCyr ; Alignment reference a 0 0 0 117 200 23 523 5 200 15 5 5 15 89 208 c 0 0 0 189 43 11 12 577 26 10 11 528 549 272 84 g 0 0 0 178 229 555 45 14 16 12 573 14 14 34 194 t 0 0 0 113 125 8 17 1 355 560 8 50 19 202 111

oligos_7nt_mkv4_m5_shift3 (oligos_7nt_mkv4_m5)
; oligos_7nt_mkv4_m5 versus oligos_7nt_mkv4_m5; m=1/17; ncol2=12; w=0; offset=0; strand=D; shift=3; score= 1; ---srGACwTGCCyr ; cor=; Ncor= a 0 0 0 117 200 23 523 5 200 15 5 5 15 89 208 c 0 0 0 189 43 11 12 577 26 10 11 528 549 272 84 g 0 0 0 178 229 555 45 14 16 12 573 14 14 34 194 t 0 0 0 113 125 8 17 1 355 560 8 50 19 202 111

oligos_7nt_mkv4_m3_rc_shift3 (oligos_7nt_mkv4_m3_rc)
; oligos_7nt_mkv4_m5 versus oligos_7nt_mkv4_m3_rc; m=2/17; ncol2=12; w=0; offset=0; strand=R; shift=3; score=0.886954; ---brGACTTGTCyr ; cor=; Ncor= a 0 0 0 74 145 19 391 4 105 3 4 5 17 64 131 c 0 0 0 132 27 7 12 442 8 9 11 79 389 177 75 g 0 0 0 126 182 415 40 1 22 6 429 14 19 38 148 t 0 0 0 119 97 10 8 4 316 433 7 353 26 172 97

oligos_6nt_mkv3_m2_rc_shift3 (oligos_6nt_mkv3_m2_rc)
; oligos_7nt_mkv4_m5 versus oligos_6nt_mkv3_m2_rc; m=3/17; ncol2=12; w=0; offset=0; strand=R; shift=3; score=0.88449; ---srGACTTGTcyd ; cor=; Ncor= a 0 0 0 111 185 22 548 9 138 5 5 24 91 104 159 c 0 0 0 172 54 6 6 560 15 9 12 116 350 209 108 g 0 0 0 157 202 535 16 7 24 11 557 44 59 70 168 t 0 0 0 141 140 18 11 5 404 556 7 397 81 198 146

positions_6nt_m5_rc_shift1 (positions_6nt_m5_rc)
; oligos_7nt_mkv4_m5 versus positions_6nt_m5_rc; m=4/17; ncol2=15; w=-2; offset=-2; strand=R; shift=1; score=0.729803; -yctrGACATGCCyr ; cor=; Ncor= a 0 92 130 131 204 63 577 6 677 23 3 17 14 68 271 c 0 309 316 172 35 36 13 714 14 17 8 598 685 340 87 g 0 76 154 126 441 613 129 8 14 18 720 9 10 37 261 t 0 257 134 305 54 22 15 6 29 676 3 110 25 289 115

positions_7nt_m4_rc_shift1 (positions_7nt_m4_rc)
; oligos_7nt_mkv4_m5 versus positions_7nt_m4_rc; m=5/17; ncol2=15; w=-2; offset=-2; strand=R; shift=1; score=0.717373; -yccAGACATGCCyr ; cor=; Ncor= a 0 74 111 94 429 55 522 8 564 25 10 8 20 51 198 c 0 296 280 372 30 37 7 593 14 7 12 507 553 255 82 g 0 55 84 64 112 507 79 6 14 13 587 7 10 22 237 t 0 191 141 86 45 17 8 9 24 571 7 94 33 288 99

oligos_6nt_mkv3_m3_shift2 (oligos_6nt_mkv3_m3)
; oligos_7nt_mkv4_m5 versus oligos_6nt_mkv3_m3; m=6/17; ncol2=14; w=-1; offset=-1; strand=D; shift=2; score=0.702019; --cyrGACATGTCyr ; cor=; Ncor= a 0 0 144 170 237 64 626 9 750 38 5 14 26 105 243 c 0 0 323 259 42 25 8 791 8 19 10 167 700 431 143 g 0 0 173 143 431 700 167 10 19 8 790 8 25 42 260 t 0 0 175 243 105 26 14 5 38 750 10 626 64 237 169

positions_6nt_m2_shift3 (positions_6nt_m2)
; oligos_7nt_mkv4_m5 versus positions_6nt_m2; m=7/17; ncol2=15; w=0; offset=0; strand=D; shift=3; score=0.698841; ---crrACATGCCCa ; cor=; Ncor= a 0 0 0 187 285 296 736 7 734 37 16 21 45 40 500 c 0 0 0 255 121 111 22 812 36 13 6 725 763 671 68 g 0 0 0 197 310 368 75 18 21 23 809 7 17 12 180 t 0 0 0 207 130 71 13 9 55 773 15 93 21 123 98

positions_7nt_m2_rc_shift2 (positions_7nt_m2_rc)
; oligos_7nt_mkv4_m5 versus positions_7nt_m2_rc; m=8/17; ncol2=16; w=-1; offset=-1; strand=R; shift=2; score=0.677958; --cyrGACATGCCCa ; cor=; Ncor= a 0 0 140 169 232 107 656 4 704 40 10 12 29 38 497 c 0 0 333 240 44 67 19 788 33 18 6 699 740 668 70 g 0 0 198 182 452 612 135 19 17 20 799 12 23 18 169 t 0 0 151 231 94 36 12 11 68 744 7 99 30 98 86

positions_6nt_m1_shift1 (positions_6nt_m1)
; oligos_7nt_mkv4_m5 versus positions_6nt_m1; m=9/17; ncol2=17; w=-2; offset=-2; strand=D; shift=1; score=0.641704; -ycyrGACATGCCCa ; cor=; Ncor= a 0 126 136 150 231 81 622 4 698 32 7 19 18 42 444 c 0 323 337 218 43 48 21 769 19 14 6 658 726 608 67 g 0 91 181 144 430 634 139 17 14 19 778 10 15 21 193 t 0 255 141 283 91 32 13 5 64 730 4 108 36 124 91

positions_7nt_m1_shift1 (positions_7nt_m1)
; oligos_7nt_mkv4_m5 versus positions_7nt_m1; m=10/17; ncol2=17; w=-2; offset=-2; strand=D; shift=1; score=0.626812; -yccaGACATGCCCa ; cor=; Ncor= a 0 111 127 107 449 74 578 8 611 38 9 17 43 27 447 c 0 310 303 386 41 70 12 686 35 11 5 592 620 584 53 g 0 80 151 112 142 537 115 13 14 15 695 5 18 13 133 t 0 213 133 109 82 33 9 7 54 650 5 100 33 90 81

positions_6nt_m3_shift0 (positions_6nt_m3)
; oligos_7nt_mkv4_m5 versus positions_6nt_m3; m=11/17; ncol2=18; w=-3; offset=-3; strand=D; shift=0; score=0.607141; gyccrGACATGCCCa ; cor=; Ncor= a 92 120 129 132 443 72 682 10 746 51 10 15 44 44 481 c 187 394 435 399 54 56 19 837 36 17 8 728 769 662 82 g 472 91 160 149 270 714 157 14 19 23 847 10 23 27 196 t 119 265 146 190 103 28 12 9 69 779 5 117 34 137 111

positions_6nt_m4_shift1 (positions_6nt_m4)
; oligos_7nt_mkv4_m5 versus positions_6nt_m4; m=12/17; ncol2=16; w=-2; offset=-2; strand=D; shift=1; score=0.605758; -ycygGACATGTCcr ; cor=; Ncor= a 0 97 140 122 176 66 547 13 695 31 7 15 32 69 327 c 0 272 302 192 31 20 10 714 7 12 11 173 627 469 105 g 0 98 164 105 469 627 173 11 12 7 713 10 20 31 192 t 0 278 139 326 69 32 15 7 31 695 14 547 66 176 121

positions_7nt_m3_shift1 (positions_7nt_m3)
; oligos_7nt_mkv4_m5 versus positions_7nt_m3; m=13/17; ncol2=16; w=-2; offset=-2; strand=D; shift=1; score=0.573481; -yyCAGACATGTCTG ; cor=; Ncor= a 0 35 58 37 231 15 234 7 289 15 2 6 11 22 38 c 0 120 124 221 11 7 5 306 8 4 1 71 283 52 20 g 0 37 52 20 52 283 71 1 4 8 306 5 7 11 221 t 0 124 82 38 22 11 6 2 15 289 7 234 15 231 37

oligos_7nt_mkv4_m1_shift2 (oligos_7nt_mkv4_m1)
; oligos_7nt_mkv4_m5 versus oligos_7nt_mkv4_m1; m=14/17; ncol2=19; w=-1; offset=-1; strand=D; shift=2; score=0.557995; --skgGACATGCCCA ; cor=; Ncor= a 0 0 106 123 130 97 429 7 483 42 6 7 21 18 416 c 0 0 196 138 31 41 16 557 24 16 4 466 531 500 17 g 0 0 185 157 356 416 126 15 20 23 572 6 8 11 116 t 0 0 98 167 68 31 14 6 58 504 3 106 25 56 36

oligos_7nt_mkv4_m4_shift5 (oligos_7nt_mkv4_m4)
; oligos_7nt_mkv4_m5 versus oligos_7nt_mkv4_m4; m=15/17; ncol2=11; w=0; offset=2; strand=D; shift=5; score=0.549349; -----grCAaGCCCr ; cor=; Ncor= a 0 0 0 0 0 92 199 5 420 302 5 7 6 4 148 c 0 0 0 0 0 91 100 447 33 35 11 443 450 461 102 g 0 0 0 0 0 211 127 17 17 23 451 10 16 5 144 t 0 0 0 0 0 83 51 8 7 117 10 17 5 7 83

positions_7nt_m5_shift0 (positions_7nt_m5)
; oligos_7nt_mkv4_m5 versus positions_7nt_m5; m=16/17; ncol2=18; w=-3; offset=-3; strand=D; shift=0; score=0.513849; gyctGGGCATGCCCa ; cor=; Ncor= a 62 46 57 49 61 23 106 4 449 20 2 6 30 16 303 c 94 212 308 114 14 15 22 489 22 12 8 370 436 412 38 g 264 66 94 38 412 435 369 8 12 22 489 22 15 14 114 t 83 179 44 302 16 30 6 2 20 449 4 105 22 61 48

oligos_6nt_mkv3_m1_shift2 (oligos_6nt_mkv3_m1)
; oligos_7nt_mkv4_m5 versus oligos_6nt_mkv3_m1; m=17/17; ncol2=24; w=-1; offset=-1; strand=D; shift=2; score=0.453392; --skrGrCATGyCCr ; cor=; Ncor= a 0 0 110 103 155 91 354 5 435 53 5 15 25 27 331 c 0 0 149 139 33 22 15 542 20 8 2 387 508 390 16 g 0 0 202 163 304 416 178 9 17 22 563 4 5 13 192 t 0 0 112 168 81 44 26 17 101 490 3 167 35 143 34

One-to-n matrix alignment; reference matrix: positions_7nt_m4_shift5 ; 19 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
positions_7nt_m4_shift5 (positions_7nt_m4)
; positions_7nt_m4; m=0 (reference); ncol1=15; shift=5; ncol=20; -----cyrGGCATGTCTggr ; Alignment reference a 0 0 0 0 0 87 99 288 33 94 7 571 24 9 8 17 45 86 141 191 c 0 0 0 0 0 265 237 22 10 7 587 13 14 6 79 507 112 64 84 55 g 0 0 0 0 0 146 82 255 553 507 12 7 14 593 7 37 30 372 280 296 t 0 0 0 0 0 118 198 51 20 8 10 25 564 8 522 55 429 94 111 74

positions_7nt_m4_shift5 (positions_7nt_m4)
; positions_7nt_m4 versus positions_7nt_m4; m=1/18; ncol2=15; w=0; offset=0; strand=D; shift=5; score= 1; -----cyrGGCATGTCTggr ; cor=; Ncor= a 0 0 0 0 0 87 99 288 33 94 7 571 24 9 8 17 45 86 141 191 c 0 0 0 0 0 265 237 22 10 7 587 13 14 6 79 507 112 64 84 55 g 0 0 0 0 0 146 82 255 553 507 12 7 14 593 7 37 30 372 280 296 t 0 0 0 0 0 118 198 51 20 8 10 25 564 8 522 55 429 94 111 74

positions_6nt_m5_shift5 (positions_6nt_m5)
; positions_7nt_m4 versus positions_6nt_m5; m=2/18; ncol2=15; w=0; offset=0; strand=D; shift=5; score=0.942295; -----cyrGGCATGTCyagr ; cor=; Ncor= a 0 0 0 0 0 91 115 289 25 110 3 676 29 6 15 22 54 305 134 257 c 0 0 0 0 0 329 261 37 10 9 720 18 14 8 129 613 441 126 154 76 g 0 0 0 0 0 172 87 340 685 598 8 17 14 714 13 36 35 172 316 309 t 0 0 0 0 0 142 271 68 14 17 3 23 677 6 577 63 204 131 130 92

positions_7nt_m3_shift4 (positions_7nt_m3)
; positions_7nt_m4 versus positions_7nt_m3; m=3/18; ncol2=16; w=-1; offset=-1; strand=D; shift=4; score=0.847367; ----yyCAGACATGTCTGrr ; cor=; Ncor= a 0 0 0 0 35 58 37 231 15 234 7 289 15 2 6 11 22 38 82 124 c 0 0 0 0 120 124 221 11 7 5 306 8 4 1 71 283 52 20 52 37 g 0 0 0 0 37 52 20 52 283 71 1 4 8 306 5 7 11 221 124 120 t 0 0 0 0 124 82 38 22 11 6 2 15 289 7 234 15 231 37 58 35

positions_7nt_m1_rc_shift3 (positions_7nt_m1_rc)
; positions_7nt_m4 versus positions_7nt_m1_rc; m=4/18; ncol2=17; w=-2; offset=-2; strand=R; shift=3; score=0.842085; ---gyctGGGCATGTCtggr ; cor=; Ncor= a 0 0 0 75 80 73 81 90 33 100 5 650 54 7 9 33 82 109 133 213 c 0 0 0 117 231 401 133 13 18 5 695 15 14 13 115 537 142 112 151 80 g 0 0 0 365 99 143 53 584 620 592 5 11 35 686 12 70 41 386 303 310 t 0 0 0 157 304 97 447 27 43 17 9 38 611 8 578 74 449 107 127 111

oligos_6nt_mkv3_m3_shift5 (oligos_6nt_mkv3_m3)
; positions_7nt_m4 versus oligos_6nt_mkv3_m3; m=5/18; ncol2=14; w=0; offset=0; strand=D; shift=5; score=0.816769; -----cyrGACATGTCyrg- ; cor=; Ncor= a 0 0 0 0 0 144 170 237 64 626 9 750 38 5 14 26 105 243 175 0 c 0 0 0 0 0 323 259 42 25 8 791 8 19 10 167 700 431 143 172 0 g 0 0 0 0 0 173 143 431 700 167 10 19 8 790 8 25 42 260 323 0 t 0 0 0 0 0 175 243 105 26 14 5 38 750 10 626 64 237 169 145 0

positions_6nt_m1_rc_shift3 (positions_6nt_m1_rc)
; positions_7nt_m4 versus positions_6nt_m1_rc; m=6/18; ncol2=17; w=-2; offset=-2; strand=R; shift=3; score=0.813271; ---gyctGGGCATGTCyrgr ; cor=; Ncor= a 0 0 0 83 77 66 91 124 36 108 4 730 64 5 13 32 91 283 141 255 c 0 0 0 135 297 475 193 21 15 10 778 19 14 17 139 634 430 144 181 91 g 0 0 0 417 111 153 67 608 726 658 6 14 19 769 21 48 43 218 337 323 t 0 0 0 160 310 101 444 42 18 19 7 32 698 4 622 81 231 150 136 126

positions_6nt_m4_rc_shift4 (positions_6nt_m4_rc)
; positions_7nt_m4 versus positions_6nt_m4_rc; m=7/18; ncol2=16; w=-1; offset=-1; strand=R; shift=4; score=0.799716; ----ycygGACATGTCcrgr ; cor=; Ncor= a 0 0 0 0 97 141 121 176 66 547 14 695 31 7 15 32 69 326 139 278 c 0 0 0 0 272 302 192 31 20 10 713 7 12 11 173 627 469 105 164 98 g 0 0 0 0 98 163 105 469 627 173 11 12 7 714 10 20 31 192 302 272 t 0 0 0 0 278 139 327 69 32 15 7 31 695 13 547 66 176 122 140 97

positions_6nt_m3_rc_shift3 (positions_6nt_m3_rc)
; positions_7nt_m4 versus positions_6nt_m3_rc; m=8/18; ncol2=18; w=-2; offset=-2; strand=R; shift=3; score=0.798576; ---gyctGGGCATGTCyggr ; cor=; Ncor= a 0 0 0 95 97 71 111 137 34 117 5 779 69 9 12 28 103 190 146 265 c 0 0 0 159 312 504 196 27 23 10 847 23 19 14 157 714 270 149 160 91 g 0 0 0 430 117 175 82 662 769 728 8 17 36 837 19 56 54 399 435 394 t 0 0 0 186 344 120 481 44 44 15 10 51 746 10 682 72 443 132 129 120

positions_7nt_m2_shift3 (positions_7nt_m2)
; positions_7nt_m4 versus positions_7nt_m2; m=9/18; ncol2=16; w=-2; offset=-2; strand=D; shift=3; score=0.751464; ---gyctGGGCATGTCyrg- ; cor=; Ncor= a 0 0 0 87 95 75 86 98 30 99 7 744 68 11 12 36 94 231 151 0 c 0 0 0 149 302 475 169 18 23 12 799 20 17 19 135 612 452 182 198 0 g 0 0 0 419 110 166 70 668 740 699 6 18 33 788 19 67 44 240 333 0 t 0 0 0 167 315 106 497 38 29 12 10 40 704 4 656 107 232 169 140 0

oligos_7nt_mkv4_m5_rc_shift6 (oligos_7nt_mkv4_m5_rc)
; positions_7nt_m4 versus oligos_7nt_mkv4_m5_rc; m=10/18; ncol2=12; w=0; offset=1; strand=R; shift=6; score=0.717373; ------yrGGCAwGTCys-- ; cor=; Ncor= a 0 0 0 0 0 0 111 202 19 50 8 560 355 1 17 8 125 113 0 0 c 0 0 0 0 0 0 194 34 14 14 573 12 16 14 45 555 229 178 0 0 g 0 0 0 0 0 0 84 272 549 528 11 10 26 577 12 11 43 189 0 0 t 0 0 0 0 0 0 208 89 15 5 5 15 200 5 523 23 200 117 0 0

positions_6nt_m2_rc_shift3 (positions_6nt_m2_rc)
; positions_7nt_m4 versus positions_6nt_m2_rc; m=11/18; ncol2=15; w=-2; offset=-2; strand=R; shift=3; score=0.691873; ---gyctGGGCATGTyyg-- ; cor=; Ncor= a 0 0 0 88 98 79 98 123 21 93 15 773 55 9 13 71 130 207 0 0 c 0 0 0 123 296 552 180 12 17 7 809 23 21 18 75 368 310 197 0 0 g 0 0 0 454 136 127 68 671 763 725 6 13 36 812 22 111 121 255 0 0 t 0 0 0 181 316 88 500 40 45 21 16 37 734 7 736 296 285 187 0 0

positions_7nt_m5_rc_shift3 (positions_7nt_m5_rc)
; positions_7nt_m4 versus positions_7nt_m5_rc; m=12/18; ncol2=18; w=-2; offset=-2; strand=R; shift=3; score=0.655029; ---gyctGGGCATGCCCagr ; cor=; Ncor= a 0 0 0 62 46 57 48 61 22 105 4 449 20 2 6 30 16 302 44 179 c 0 0 0 93 212 308 114 14 15 22 489 22 12 8 369 435 412 38 94 66 g 0 0 0 265 66 94 38 412 436 370 8 12 22 489 22 15 14 114 308 212 t 0 0 0 83 179 44 303 16 30 6 2 20 449 4 106 23 61 49 57 46

oligos_7nt_mkv4_m3_shift6 (oligos_7nt_mkv4_m3)
; positions_7nt_m4 versus oligos_7nt_mkv4_m3; m=13/18; ncol2=12; w=0; offset=1; strand=D; shift=6; score=0.625124; ------yrGACAAGTCyv-- ; cor=; Ncor= a 0 0 0 0 0 0 97 172 26 353 7 433 316 4 8 10 97 119 0 0 c 0 0 0 0 0 0 148 38 19 14 429 6 22 1 40 415 182 126 0 0 g 0 0 0 0 0 0 75 177 389 79 11 9 8 442 12 7 27 132 0 0 t 0 0 0 0 0 0 131 64 17 5 4 3 105 4 391 19 145 74 0 0

oligos_6nt_mkv3_m2_shift6 (oligos_6nt_mkv3_m2)
; positions_7nt_m4 versus oligos_6nt_mkv3_m2; m=14/18; ncol2=12; w=0; offset=1; strand=D; shift=6; score=0.619964; ------hrgACAAGTCys-- ; cor=; Ncor= a 0 0 0 0 0 0 146 198 81 397 7 556 404 5 11 18 140 141 0 0 c 0 0 0 0 0 0 168 70 59 44 557 11 24 7 16 535 202 157 0 0 g 0 0 0 0 0 0 108 209 350 116 12 9 15 560 6 6 54 172 0 0 t 0 0 0 0 0 0 159 104 91 24 5 5 138 9 548 22 185 111 0 0

oligos_7nt_mkv4_m1_rc_shift0 (oligos_7nt_mkv4_m1_rc)
; positions_7nt_m4 versus oligos_7nt_mkv4_m1_rc; m=15/18; ncol2=19; w=-5; offset=-5; strand=R; shift=0; score=0.602204; CwtGyCTGGGCATGTCcms- ; cor=; Ncor= a 60 285 67 29 19 23 36 56 25 106 3 504 58 6 14 31 68 167 98 0 c 398 77 39 44 361 496 116 11 8 6 572 23 20 15 126 416 356 157 185 0 g 57 64 82 463 34 31 17 500 531 466 4 16 24 557 16 41 31 138 196 0 t 70 159 397 49 171 35 416 18 21 7 6 42 483 7 429 97 130 123 106 0

oligos_7nt_mkv4_m4_rc_shift5 (oligos_7nt_mkv4_m4_rc)
; positions_7nt_m4 versus oligos_7nt_mkv4_m4_rc; m=16/18; ncol2=11; w=0; offset=0; strand=R; shift=5; score=0.582337; -----syGGGCtTGyc---- ; cor=; Ncor= a 0 0 0 0 0 59 83 7 5 17 10 117 7 8 51 83 0 0 0 0 c 0 0 0 0 0 222 144 5 16 10 451 23 17 17 127 211 0 0 0 0 g 0 0 0 0 0 137 102 461 450 443 11 35 33 447 100 91 0 0 0 0 t 0 0 0 0 0 59 148 4 6 7 5 302 420 5 199 92 0 0 0 0

oligos_6nt_mkv3_m1_rc_shift5 (oligos_6nt_mkv3_m1_rc)
; positions_7nt_m4 versus oligos_6nt_mkv3_m1_rc; m=17/18; ncol2=24; w=0; offset=0; strand=R; shift=5; score=0.531997; -----skrGrCATGyCyGGr ; cor=; Ncor= a 0 0 0 0 0 114 112 154 84 329 7 422 44 2 13 20 34 143 35 167 c 0 0 0 0 0 156 136 38 25 22 535 28 10 3 358 513 192 13 5 4 g 0 0 0 0 0 180 154 315 420 196 11 17 22 565 6 7 16 390 508 387 t 0 0 0 0 0 123 171 66 44 26 20 106 497 3 196 33 331 27 25 15

oligos_7nt_mkv4_m2_rc_shift10 (oligos_7nt_mkv4_m2_rc)
; positions_7nt_m4 versus oligos_7nt_mkv4_m2_rc; m=18/18; ncol2=12; w=0; offset=5; strand=R; shift=10; score=0.498004; ----------caTGTCTGGG ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 78 252 23 12 17 12 41 15 25 48 c 0 0 0 0 0 0 0 0 0 0 366 127 7 30 106 595 19 1 6 23 g 0 0 0 0 0 0 0 0 0 0 80 125 17 586 32 21 9 620 594 556 t 0 0 0 0 0 0 0 0 0 0 125 145 602 21 494 21 580 13 24 22

One-to-n matrix alignment; reference matrix: positions_7nt_m5_shift0 ; 15 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
positions_7nt_m5_shift0 (positions_7nt_m5)
; positions_7nt_m5; m=0 (reference); ncol1=18; shift=0; ncol=18; gyctGGGCATGCCCagrc ; Alignment reference a 62 46 57 49 61 23 106 4 449 20 2 6 30 16 303 44 179 83 c 94 212 308 114 14 15 22 489 22 12 8 370 436 412 38 94 66 265 g 264 66 94 38 412 435 369 8 12 22 489 22 15 14 114 308 212 93 t 83 179 44 302 16 30 6 2 20 449 4 105 22 61 48 57 46 62

positions_7nt_m5_shift0 (positions_7nt_m5)
; positions_7nt_m5 versus positions_7nt_m5; m=1/14; ncol2=18; w=0; offset=0; strand=D; shift=0; score= 1; gyctGGGCATGCCCagrc ; cor=; Ncor= a 62 46 57 49 61 23 106 4 449 20 2 6 30 16 303 44 179 83 c 94 212 308 114 14 15 22 489 22 12 8 370 436 412 38 94 66 265 g 264 66 94 38 412 435 369 8 12 22 489 22 15 14 114 308 212 93 t 83 179 44 302 16 30 6 2 20 449 4 105 22 61 48 57 46 62

positions_6nt_m3_shift0 (positions_6nt_m3)
; positions_7nt_m5 versus positions_6nt_m3; m=2/14; ncol2=18; w=0; offset=0; strand=D; shift=0; score=0.885966; gyccrGACATGCCCagrc ; cor=; Ncor= a 92 120 129 132 443 72 682 10 746 51 10 15 44 44 481 120 344 186 c 187 394 435 399 54 56 19 837 36 17 8 728 769 662 82 175 117 430 g 472 91 160 149 270 714 157 14 19 23 847 10 23 27 196 504 312 159 t 119 265 146 190 103 28 12 9 69 779 5 117 34 137 111 71 97 95

positions_6nt_m1_shift1 (positions_6nt_m1)
; positions_7nt_m5 versus positions_6nt_m1; m=3/14; ncol2=17; w=0; offset=1; strand=D; shift=1; score=0.86862; -ycyrGACATGCCCagrc ; cor=; Ncor= a 0 126 136 150 231 81 622 4 698 32 7 19 18 42 444 101 310 160 c 0 323 337 218 43 48 21 769 19 14 6 658 726 608 67 153 111 417 g 0 91 181 144 430 634 139 17 14 19 778 10 15 21 193 475 297 135 t 0 255 141 283 91 32 13 5 64 730 4 108 36 124 91 66 77 83

positions_7nt_m2_rc_shift2 (positions_7nt_m2_rc)
; positions_7nt_m5 versus positions_7nt_m2_rc; m=4/14; ncol2=16; w=0; offset=2; strand=R; shift=2; score=0.808457; --cyrGACATGCCCagrc ; cor=; Ncor= a 0 0 140 169 232 107 656 4 704 40 10 12 29 38 497 106 315 167 c 0 0 333 240 44 67 19 788 33 18 6 699 740 668 70 166 110 419 g 0 0 198 182 452 612 135 19 17 20 799 12 23 18 169 475 302 149 t 0 0 151 231 94 36 12 11 68 744 7 99 30 98 86 75 95 87

positions_7nt_m1_shift1 (positions_7nt_m1)
; positions_7nt_m5 versus positions_7nt_m1; m=5/14; ncol2=17; w=0; offset=1; strand=D; shift=1; score=0.800625; -yccaGACATGCCCagrc ; cor=; Ncor= a 0 111 127 107 449 74 578 8 611 38 9 17 43 27 447 97 304 157 c 0 310 303 386 41 70 12 686 35 11 5 592 620 584 53 143 99 365 g 0 80 151 112 142 537 115 13 14 15 695 5 18 13 133 401 231 117 t 0 213 133 109 82 33 9 7 54 650 5 100 33 90 81 73 80 75

positions_6nt_m4_shift1 (positions_6nt_m4)
; positions_7nt_m5 versus positions_6nt_m4; m=6/14; ncol2=16; w=0; offset=1; strand=D; shift=1; score=0.779474; -ycygGACATGTCcrgr- ; cor=; Ncor= a 0 97 140 122 176 66 547 13 695 31 7 15 32 69 327 139 278 0 c 0 272 302 192 31 20 10 714 7 12 11 173 627 469 105 163 98 0 g 0 98 164 105 469 627 173 11 12 7 713 10 20 31 192 302 272 0 t 0 278 139 326 69 32 15 7 31 695 14 547 66 176 121 141 97 0

positions_6nt_m5_rc_shift1 (positions_6nt_m5_rc)
; positions_7nt_m5 versus positions_6nt_m5_rc; m=7/14; ncol2=15; w=0; offset=1; strand=R; shift=1; score=0.746695; -yctrGACATGCCyrg-- ; cor=; Ncor= a 0 92 130 131 204 63 577 6 677 23 3 17 14 68 271 142 0 0 c 0 309 316 172 35 36 13 714 14 17 8 598 685 340 87 172 0 0 g 0 76 154 126 441 613 129 8 14 18 720 9 10 37 261 329 0 0 t 0 257 134 305 54 22 15 6 29 676 3 110 25 289 115 91 0 0

positions_6nt_m2_shift3 (positions_6nt_m2)
; positions_7nt_m5 versus positions_6nt_m2; m=8/14; ncol2=15; w=0; offset=3; strand=D; shift=3; score=0.709059; ---crrACATGCCCagrc ; cor=; Ncor= a 0 0 0 187 285 296 736 7 734 37 16 21 45 40 500 88 316 181 c 0 0 0 255 121 111 22 812 36 13 6 725 763 671 68 127 136 454 g 0 0 0 197 310 368 75 18 21 23 809 7 17 12 180 552 296 123 t 0 0 0 207 130 71 13 9 55 773 15 93 21 123 98 79 98 88

oligos_7nt_mkv4_m1_shift2 (oligos_7nt_mkv4_m1)
; positions_7nt_m5 versus oligos_7nt_mkv4_m1; m=9/14; ncol2=19; w=0; offset=2; strand=D; shift=2; score=0.688122; --skgGACATGCCCAGrC ; cor=; Ncor= a 0 0 106 123 130 97 429 7 483 42 6 7 21 18 416 35 171 49 c 0 0 196 138 31 41 16 557 24 16 4 466 531 500 17 31 34 463 g 0 0 185 157 356 416 126 15 20 23 572 6 8 11 116 496 361 44 t 0 0 98 167 68 31 14 6 58 504 3 106 25 56 36 23 19 29

positions_7nt_m4_rc_shift1 (positions_7nt_m4_rc)
; positions_7nt_m5 versus positions_7nt_m4_rc; m=10/14; ncol2=15; w=0; offset=1; strand=R; shift=1; score=0.655029; -yccAGACATGCCyrg-- ; cor=; Ncor= a 0 74 111 94 429 55 522 8 564 25 10 8 20 51 198 118 0 0 c 0 296 280 372 30 37 7 593 14 7 12 507 553 255 82 146 0 0 g 0 55 84 64 112 507 79 6 14 13 587 7 10 22 237 265 0 0 t 0 191 141 86 45 17 8 9 24 571 7 94 33 288 99 87 0 0

oligos_6nt_mkv3_m3_shift2 (oligos_6nt_mkv3_m3)
; positions_7nt_m5 versus oligos_6nt_mkv3_m3; m=11/14; ncol2=14; w=0; offset=2; strand=D; shift=2; score=0.645753; --cyrGACATGTCyrg-- ; cor=; Ncor= a 0 0 144 170 237 64 626 9 750 38 5 14 26 105 243 175 0 0 c 0 0 323 259 42 25 8 791 8 19 10 167 700 431 143 172 0 0 g 0 0 173 143 431 700 167 10 19 8 790 8 25 42 260 323 0 0 t 0 0 175 243 105 26 14 5 38 750 10 626 64 237 169 145 0 0

oligos_6nt_mkv3_m1_shift2 (oligos_6nt_mkv3_m1)
; positions_7nt_m5 versus oligos_6nt_mkv3_m1; m=12/14; ncol2=24; w=0; offset=2; strand=D; shift=2; score=0.542889; --skrGrCATGyCCrGrC ; cor=; Ncor= a 0 0 110 103 155 91 354 5 435 53 5 15 25 27 331 33 196 3 c 0 0 149 139 33 22 15 542 20 8 2 387 508 390 16 7 6 565 g 0 0 202 163 304 416 178 9 17 22 563 4 5 13 192 513 358 3 t 0 0 112 168 81 44 26 17 101 490 3 167 35 143 34 20 13 2

oligos_7nt_mkv4_m5_shift3 (oligos_7nt_mkv4_m5)
; positions_7nt_m5 versus oligos_7nt_mkv4_m5; m=13/14; ncol2=12; w=0; offset=3; strand=D; shift=3; score=0.513849; ---srGACwTGCCyr--- ; cor=; Ncor= a 0 0 0 117 200 23 523 5 200 15 5 5 15 89 208 0 0 0 c 0 0 0 189 43 11 12 577 26 10 11 528 549 272 84 0 0 0 g 0 0 0 178 229 555 45 14 16 12 573 14 14 34 194 0 0 0 t 0 0 0 113 125 8 17 1 355 560 8 50 19 202 111 0 0 0

oligos_7nt_mkv4_m4_shift5 (oligos_7nt_mkv4_m4)
; positions_7nt_m5 versus oligos_7nt_mkv4_m4; m=14/14; ncol2=11; w=0; offset=5; strand=D; shift=5; score=0.507732; -----grCAaGCCCrs-- ; cor=; Ncor= a 0 0 0 0 0 92 199 5 420 302 5 7 6 4 148 59 0 0 c 0 0 0 0 0 91 100 447 33 35 11 443 450 461 102 137 0 0 g 0 0 0 0 0 211 127 17 17 23 451 10 16 5 144 222 0 0 t 0 0 0 0 0 83 51 8 7 117 10 17 5 7 83 59 0 0

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv4_m1_shift2 ; 19 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv4_m1_shift2 (oligos_7nt_mkv4_m1)
; oligos_7nt_mkv4_m1; m=0 (reference); ncol1=19; shift=2; ncol=21; --skgGACATGCCCAGrCawG ; Alignment reference a 0 0 106 123 130 97 429 7 483 42 6 7 21 18 416 35 171 49 397 159 70 c 0 0 196 138 31 41 16 557 24 16 4 466 531 500 17 31 34 463 82 64 57 g 0 0 185 157 356 416 126 15 20 23 572 6 8 11 116 496 361 44 39 77 398 t 0 0 98 167 68 31 14 6 58 504 3 106 25 56 36 23 19 29 67 285 60

oligos_7nt_mkv4_m1_shift2 (oligos_7nt_mkv4_m1)
; oligos_7nt_mkv4_m1 versus oligos_7nt_mkv4_m1; m=1/18; ncol2=19; w=0; offset=0; strand=D; shift=2; score= 1; --skgGACATGCCCAGrCawG ; cor=; Ncor= a 0 0 106 123 130 97 429 7 483 42 6 7 21 18 416 35 171 49 397 159 70 c 0 0 196 138 31 41 16 557 24 16 4 466 531 500 17 31 34 463 82 64 57 g 0 0 185 157 356 416 126 15 20 23 572 6 8 11 116 496 361 44 39 77 398 t 0 0 98 167 68 31 14 6 58 504 3 106 25 56 36 23 19 29 67 285 60

positions_7nt_m2_rc_shift2 (positions_7nt_m2_rc)
; oligos_7nt_mkv4_m1 versus positions_7nt_m2_rc; m=2/18; ncol2=16; w=0; offset=0; strand=R; shift=2; score=0.817155; --cyrGACATGCCCagrc--- ; cor=; Ncor= a 0 0 140 169 232 107 656 4 704 40 10 12 29 38 497 106 315 167 0 0 0 c 0 0 333 240 44 67 19 788 33 18 6 699 740 668 70 166 110 419 0 0 0 g 0 0 198 182 452 612 135 19 17 20 799 12 23 18 169 475 302 149 0 0 0 t 0 0 151 231 94 36 12 11 68 744 7 99 30 98 86 75 95 87 0 0 0

positions_6nt_m1_shift1 (positions_6nt_m1)
; oligos_7nt_mkv4_m1 versus positions_6nt_m1; m=3/18; ncol2=17; w=-1; offset=-1; strand=D; shift=1; score=0.774791; -ycyrGACATGCCCagrc--- ; cor=; Ncor= a 0 126 136 150 231 81 622 4 698 32 7 19 18 42 444 101 310 160 0 0 0 c 0 323 337 218 43 48 21 769 19 14 6 658 726 608 67 153 111 417 0 0 0 g 0 91 181 144 430 634 139 17 14 19 778 10 15 21 193 475 297 135 0 0 0 t 0 255 141 283 91 32 13 5 64 730 4 108 36 124 91 66 77 83 0 0 0

oligos_6nt_mkv3_m1_shift2 (oligos_6nt_mkv3_m1)
; oligos_7nt_mkv4_m1 versus oligos_6nt_mkv3_m1; m=4/18; ncol2=24; w=0; offset=0; strand=D; shift=2; score=0.766561; --skrGrCATGyCCrGrCATG ; cor=; Ncor= a 0 0 110 103 155 91 354 5 435 53 5 15 25 27 331 33 196 3 497 106 20 c 0 0 149 139 33 22 15 542 20 8 2 387 508 390 16 7 6 565 22 17 11 g 0 0 202 163 304 416 178 9 17 22 563 4 5 13 192 513 358 3 10 28 535 t 0 0 112 168 81 44 26 17 101 490 3 167 35 143 34 20 13 2 44 422 7

positions_6nt_m2_shift3 (positions_6nt_m2)
; oligos_7nt_mkv4_m1 versus positions_6nt_m2; m=5/18; ncol2=15; w=0; offset=1; strand=D; shift=3; score=0.75497; ---crrACATGCCCagrc--- ; cor=; Ncor= a 0 0 0 187 285 296 736 7 734 37 16 21 45 40 500 88 316 181 0 0 0 c 0 0 0 255 121 111 22 812 36 13 6 725 763 671 68 127 136 454 0 0 0 g 0 0 0 197 310 368 75 18 21 23 809 7 17 12 180 552 296 123 0 0 0 t 0 0 0 207 130 71 13 9 55 773 15 93 21 123 98 79 98 88 0 0 0

positions_7nt_m1_shift1 (positions_7nt_m1)
; oligos_7nt_mkv4_m1 versus positions_7nt_m1; m=6/18; ncol2=17; w=-1; offset=-1; strand=D; shift=1; score=0.741163; -yccaGACATGCCCagrc--- ; cor=; Ncor= a 0 111 127 107 449 74 578 8 611 38 9 17 43 27 447 97 304 157 0 0 0 c 0 310 303 386 41 70 12 686 35 11 5 592 620 584 53 143 99 365 0 0 0 g 0 80 151 112 142 537 115 13 14 15 695 5 18 13 133 401 231 117 0 0 0 t 0 213 133 109 82 33 9 7 54 650 5 100 33 90 81 73 80 75 0 0 0

positions_6nt_m3_shift0 (positions_6nt_m3)
; oligos_7nt_mkv4_m1 versus positions_6nt_m3; m=7/18; ncol2=18; w=-2; offset=-2; strand=D; shift=0; score=0.717939; gyccrGACATGCCCagrc--- ; cor=; Ncor= a 92 120 129 132 443 72 682 10 746 51 10 15 44 44 481 120 344 186 0 0 0 c 187 394 435 399 54 56 19 837 36 17 8 728 769 662 82 175 117 430 0 0 0 g 472 91 160 149 270 714 157 14 19 23 847 10 23 27 196 504 312 159 0 0 0 t 119 265 146 190 103 28 12 9 69 779 5 117 34 137 111 71 97 95 0 0 0

positions_7nt_m5_shift0 (positions_7nt_m5)
; oligos_7nt_mkv4_m1 versus positions_7nt_m5; m=8/18; ncol2=18; w=-2; offset=-2; strand=D; shift=0; score=0.688122; gyctGGGCATGCCCagrc--- ; cor=; Ncor= a 62 46 57 49 61 23 106 4 449 20 2 6 30 16 303 44 179 83 0 0 0 c 94 212 308 114 14 15 22 489 22 12 8 370 436 412 38 94 66 265 0 0 0 g 264 66 94 38 412 435 369 8 12 22 489 22 15 14 114 308 212 93 0 0 0 t 83 179 44 302 16 30 6 2 20 449 4 105 22 61 48 57 46 62 0 0 0

positions_6nt_m4_shift1 (positions_6nt_m4)
; oligos_7nt_mkv4_m1 versus positions_6nt_m4; m=9/18; ncol2=16; w=-1; offset=-1; strand=D; shift=1; score=0.66167; -ycygGACATGTCcrgr---- ; cor=; Ncor= a 0 97 140 122 176 66 547 13 695 31 7 15 32 69 327 139 278 0 0 0 0 c 0 272 302 192 31 20 10 714 7 12 11 173 627 469 105 163 98 0 0 0 0 g 0 98 164 105 469 627 173 11 12 7 713 10 20 31 192 302 272 0 0 0 0 t 0 278 139 326 69 32 15 7 31 695 14 547 66 176 121 141 97 0 0 0 0

positions_6nt_m5_rc_shift1 (positions_6nt_m5_rc)
; oligos_7nt_mkv4_m1 versus positions_6nt_m5_rc; m=10/18; ncol2=15; w=-1; offset=-1; strand=R; shift=1; score=0.651818; -yctrGACATGCCyrg----- ; cor=; Ncor= a 0 92 130 131 204 63 577 6 677 23 3 17 14 68 271 142 0 0 0 0 0 c 0 309 316 172 35 36 13 714 14 17 8 598 685 340 87 172 0 0 0 0 0 g 0 76 154 126 441 613 129 8 14 18 720 9 10 37 261 329 0 0 0 0 0 t 0 257 134 305 54 22 15 6 29 676 3 110 25 289 115 91 0 0 0 0 0

oligos_6nt_mkv3_m3_shift2 (oligos_6nt_mkv3_m3)
; oligos_7nt_mkv4_m1 versus oligos_6nt_mkv3_m3; m=11/18; ncol2=14; w=0; offset=0; strand=D; shift=2; score=0.632778; --cyrGACATGTCyrg----- ; cor=; Ncor= a 0 0 144 170 237 64 626 9 750 38 5 14 26 105 243 175 0 0 0 0 0 c 0 0 323 259 42 25 8 791 8 19 10 167 700 431 143 172 0 0 0 0 0 g 0 0 173 143 431 700 167 10 19 8 790 8 25 42 260 323 0 0 0 0 0 t 0 0 175 243 105 26 14 5 38 750 10 626 64 237 169 145 0 0 0 0 0

positions_7nt_m4_rc_shift1 (positions_7nt_m4_rc)
; oligos_7nt_mkv4_m1 versus positions_7nt_m4_rc; m=12/18; ncol2=15; w=-1; offset=-1; strand=R; shift=1; score=0.602204; -yccAGACATGCCyrg----- ; cor=; Ncor= a 0 74 111 94 429 55 522 8 564 25 10 8 20 51 198 118 0 0 0 0 0 c 0 296 280 372 30 37 7 593 14 7 12 507 553 255 82 146 0 0 0 0 0 g 0 55 84 64 112 507 79 6 14 13 587 7 10 22 237 265 0 0 0 0 0 t 0 191 141 86 45 17 8 9 24 571 7 94 33 288 99 87 0 0 0 0 0

oligos_7nt_mkv4_m2_shift9 (oligos_7nt_mkv4_m2)
; oligos_7nt_mkv4_m1 versus oligos_7nt_mkv4_m2; m=13/18; ncol2=12; w=0; offset=7; strand=D; shift=9; score=0.559598; ---------tgCCCAGACAtg ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 115 78 22 24 13 580 21 494 21 602 145 125 c 0 0 0 0 0 0 0 0 0 108 128 556 594 620 9 21 32 586 17 125 80 g 0 0 0 0 0 0 0 0 0 99 362 23 6 1 19 595 106 30 7 127 366 t 0 0 0 0 0 0 0 0 0 327 81 48 25 15 41 12 17 12 23 252 78

oligos_7nt_mkv4_m5_shift3 (oligos_7nt_mkv4_m5)
; oligos_7nt_mkv4_m1 versus oligos_7nt_mkv4_m5; m=14/18; ncol2=12; w=0; offset=1; strand=D; shift=3; score=0.557995; ---srGACwTGCCyr------ ; cor=; Ncor= a 0 0 0 117 200 23 523 5 200 15 5 5 15 89 208 0 0 0 0 0 0 c 0 0 0 189 43 11 12 577 26 10 11 528 549 272 84 0 0 0 0 0 0 g 0 0 0 178 229 555 45 14 16 12 573 14 14 34 194 0 0 0 0 0 0 t 0 0 0 113 125 8 17 1 355 560 8 50 19 202 111 0 0 0 0 0 0

positions_7nt_m3_shift1 (positions_7nt_m3)
; oligos_7nt_mkv4_m1 versus positions_7nt_m3; m=15/18; ncol2=16; w=-1; offset=-1; strand=D; shift=1; score=0.528804; -yyCAGACATGTCTGrr---- ; cor=; Ncor= a 0 35 58 37 231 15 234 7 289 15 2 6 11 22 38 82 124 0 0 0 0 c 0 120 124 221 11 7 5 306 8 4 1 71 283 52 20 52 37 0 0 0 0 g 0 37 52 20 52 283 71 1 4 8 306 5 7 11 221 124 120 0 0 0 0 t 0 124 82 38 22 11 6 2 15 289 7 234 15 231 37 58 35 0 0 0 0

oligos_7nt_mkv4_m4_shift5 (oligos_7nt_mkv4_m4)
; oligos_7nt_mkv4_m1 versus oligos_7nt_mkv4_m4; m=16/18; ncol2=11; w=0; offset=3; strand=D; shift=5; score=0.492441; -----grCAaGCCCrs----- ; cor=; Ncor= a 0 0 0 0 0 92 199 5 420 302 5 7 6 4 148 59 0 0 0 0 0 c 0 0 0 0 0 91 100 447 33 35 11 443 450 461 102 137 0 0 0 0 0 g 0 0 0 0 0 211 127 17 17 23 451 10 16 5 144 222 0 0 0 0 0 t 0 0 0 0 0 83 51 8 7 117 10 17 5 7 83 59 0 0 0 0 0

oligos_7nt_mkv4_m3_rc_shift3 (oligos_7nt_mkv4_m3_rc)
; oligos_7nt_mkv4_m1 versus oligos_7nt_mkv4_m3_rc; m=17/18; ncol2=12; w=0; offset=1; strand=R; shift=3; score=0.484815; ---brGACTTGTCyr------ ; cor=; Ncor= a 0 0 0 74 145 19 391 4 105 3 4 5 17 64 131 0 0 0 0 0 0 c 0 0 0 132 27 7 12 442 8 9 11 79 389 177 75 0 0 0 0 0 0 g 0 0 0 126 182 415 40 1 22 6 429 14 19 38 148 0 0 0 0 0 0 t 0 0 0 119 97 10 8 4 316 433 7 353 26 172 97 0 0 0 0 0 0

oligos_6nt_mkv3_m2_rc_shift3 (oligos_6nt_mkv3_m2_rc)
; oligos_7nt_mkv4_m1 versus oligos_6nt_mkv3_m2_rc; m=18/18; ncol2=12; w=0; offset=1; strand=R; shift=3; score=0.472155; ---srGACTTGTcyd------ ; cor=; Ncor= a 0 0 0 111 185 22 548 9 138 5 5 24 91 104 159 0 0 0 0 0 0 c 0 0 0 172 54 6 6 560 15 9 12 116 350 209 108 0 0 0 0 0 0 g 0 0 0 157 202 535 16 7 24 11 557 44 59 70 168 0 0 0 0 0 0 t 0 0 0 141 140 18 11 5 404 556 7 397 81 198 146 0 0 0 0 0 0

One-to-n matrix alignment; reference matrix: positions_7nt_m2_shift8 ; 18 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
positions_7nt_m2_shift8 (positions_7nt_m2)
; positions_7nt_m2; m=0 (reference); ncol1=16; shift=8; ncol=24; --------gyctGGGCATGTCyrg ; Alignment reference a 0 0 0 0 0 0 0 0 87 95 75 86 98 30 99 7 744 68 11 12 36 94 231 151 c 0 0 0 0 0 0 0 0 149 302 475 169 18 23 12 799 20 17 19 135 612 452 182 198 g 0 0 0 0 0 0 0 0 419 110 166 70 668 740 699 6 18 33 788 19 67 44 240 333 t 0 0 0 0 0 0 0 0 167 315 106 497 38 29 12 10 40 704 4 656 107 232 169 140

positions_7nt_m2_shift8 (positions_7nt_m2)
; positions_7nt_m2 versus positions_7nt_m2; m=1/17; ncol2=16; w=0; offset=0; strand=D; shift=8; score= 1; --------gyctGGGCATGTCyrg ; cor=; Ncor= a 0 0 0 0 0 0 0 0 87 95 75 86 98 30 99 7 744 68 11 12 36 94 231 151 c 0 0 0 0 0 0 0 0 149 302 475 169 18 23 12 799 20 17 19 135 612 452 182 198 g 0 0 0 0 0 0 0 0 419 110 166 70 668 740 699 6 18 33 788 19 67 44 240 333 t 0 0 0 0 0 0 0 0 167 315 106 497 38 29 12 10 40 704 4 656 107 232 169 140

positions_6nt_m1_rc_shift8 (positions_6nt_m1_rc)
; positions_7nt_m2 versus positions_6nt_m1_rc; m=2/17; ncol2=17; w=0; offset=0; strand=R; shift=8; score=0.93908; --------gyctGGGCATGTCyrg ; cor=; Ncor= a 0 0 0 0 0 0 0 0 83 77 66 91 124 36 108 4 730 64 5 13 32 91 283 141 c 0 0 0 0 0 0 0 0 135 297 475 193 21 15 10 778 19 14 17 139 634 430 144 181 g 0 0 0 0 0 0 0 0 417 111 153 67 608 726 658 6 14 19 769 21 48 43 218 337 t 0 0 0 0 0 0 0 0 160 310 101 444 42 18 19 7 32 698 4 622 81 231 150 136

positions_6nt_m2_rc_shift8 (positions_6nt_m2_rc)
; positions_7nt_m2 versus positions_6nt_m2_rc; m=3/17; ncol2=15; w=0; offset=0; strand=R; shift=8; score=0.917578; --------gyctGGGCATGTyyg- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 88 98 79 98 123 21 93 15 773 55 9 13 71 130 207 0 c 0 0 0 0 0 0 0 0 123 296 552 180 12 17 7 809 23 21 18 75 368 310 197 0 g 0 0 0 0 0 0 0 0 454 136 127 68 671 763 725 6 13 36 812 22 111 121 255 0 t 0 0 0 0 0 0 0 0 181 316 88 500 40 45 21 16 37 734 7 736 296 285 187 0

positions_7nt_m1_rc_shift8 (positions_7nt_m1_rc)
; positions_7nt_m2 versus positions_7nt_m1_rc; m=4/17; ncol2=17; w=0; offset=0; strand=R; shift=8; score=0.911572; --------gyctGGGCATGTCtgg ; cor=; Ncor= a 0 0 0 0 0 0 0 0 75 80 73 81 90 33 100 5 650 54 7 9 33 82 109 133 c 0 0 0 0 0 0 0 0 117 231 401 133 13 18 5 695 15 14 13 115 537 142 112 151 g 0 0 0 0 0 0 0 0 365 99 143 53 584 620 592 5 11 35 686 12 70 41 386 303 t 0 0 0 0 0 0 0 0 157 304 97 447 27 43 17 9 38 611 8 578 74 449 107 127

positions_6nt_m3_rc_shift8 (positions_6nt_m3_rc)
; positions_7nt_m2 versus positions_6nt_m3_rc; m=5/17; ncol2=18; w=0; offset=0; strand=R; shift=8; score=0.874031; --------gyctGGGCATGTCygg ; cor=; Ncor= a 0 0 0 0 0 0 0 0 95 97 71 111 137 34 117 5 779 69 9 12 28 103 190 146 c 0 0 0 0 0 0 0 0 159 312 504 196 27 23 10 847 23 19 14 157 714 270 149 160 g 0 0 0 0 0 0 0 0 430 117 175 82 662 769 728 8 17 36 837 19 56 54 399 435 t 0 0 0 0 0 0 0 0 186 344 120 481 44 44 15 10 51 746 10 682 72 443 132 129

oligos_7nt_mkv4_m1_rc_shift5 (oligos_7nt_mkv4_m1_rc)
; positions_7nt_m2 versus oligos_7nt_mkv4_m1_rc; m=6/17; ncol2=19; w=-3; offset=-3; strand=R; shift=5; score=0.817155; -----CwtGyCTGGGCATGTCcms ; cor=; Ncor= a 0 0 0 0 0 60 285 67 29 19 23 36 56 25 106 3 504 58 6 14 31 68 167 98 c 0 0 0 0 0 398 77 39 44 361 496 116 11 8 6 572 23 20 15 126 416 356 157 185 g 0 0 0 0 0 57 64 82 463 34 31 17 500 531 466 4 16 24 557 16 41 31 138 196 t 0 0 0 0 0 70 159 397 49 171 35 416 18 21 7 6 42 483 7 429 97 130 123 106

positions_7nt_m5_rc_shift8 (positions_7nt_m5_rc)
; positions_7nt_m2 versus positions_7nt_m5_rc; m=7/17; ncol2=18; w=0; offset=0; strand=R; shift=8; score=0.808457; --------gyctGGGCATGCCCag ; cor=; Ncor= a 0 0 0 0 0 0 0 0 62 46 57 48 61 22 105 4 449 20 2 6 30 16 302 44 c 0 0 0 0 0 0 0 0 93 212 308 114 14 15 22 489 22 12 8 369 435 412 38 94 g 0 0 0 0 0 0 0 0 265 66 94 38 412 436 370 8 12 22 489 22 15 14 114 308 t 0 0 0 0 0 0 0 0 83 179 44 303 16 30 6 2 20 449 4 106 23 61 49 57

positions_6nt_m4_rc_shift9 (positions_6nt_m4_rc)
; positions_7nt_m2 versus positions_6nt_m4_rc; m=8/17; ncol2=16; w=0; offset=1; strand=R; shift=9; score=0.797936; ---------ycygGACATGTCcrg ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 97 141 121 176 66 547 14 695 31 7 15 32 69 326 139 c 0 0 0 0 0 0 0 0 0 272 302 192 31 20 10 713 7 12 11 173 627 469 105 164 g 0 0 0 0 0 0 0 0 0 98 163 105 469 627 173 11 12 7 714 10 20 31 192 302 t 0 0 0 0 0 0 0 0 0 278 139 327 69 32 15 7 31 695 13 547 66 176 122 140

positions_6nt_m5_shift10 (positions_6nt_m5)
; positions_7nt_m2 versus positions_6nt_m5; m=9/17; ncol2=15; w=0; offset=2; strand=D; shift=10; score=0.794631; ----------cyrGGCATGTCyag ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 91 115 289 25 110 3 676 29 6 15 22 54 305 134 c 0 0 0 0 0 0 0 0 0 0 329 261 37 10 9 720 18 14 8 129 613 441 126 154 g 0 0 0 0 0 0 0 0 0 0 172 87 340 685 598 8 17 14 714 13 36 35 172 316 t 0 0 0 0 0 0 0 0 0 0 142 271 68 14 17 3 23 677 6 577 63 204 131 130

oligos_6nt_mkv3_m3_shift10 (oligos_6nt_mkv3_m3)
; positions_7nt_m2 versus oligos_6nt_mkv3_m3; m=10/17; ncol2=14; w=0; offset=2; strand=D; shift=10; score=0.772536; ----------cyrGACATGTCyrg ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 144 170 237 64 626 9 750 38 5 14 26 105 243 175 c 0 0 0 0 0 0 0 0 0 0 323 259 42 25 8 791 8 19 10 167 700 431 143 172 g 0 0 0 0 0 0 0 0 0 0 173 143 431 700 167 10 19 8 790 8 25 42 260 323 t 0 0 0 0 0 0 0 0 0 0 175 243 105 26 14 5 38 750 10 626 64 237 169 145

positions_7nt_m4_shift10 (positions_7nt_m4)
; positions_7nt_m2 versus positions_7nt_m4; m=11/17; ncol2=15; w=0; offset=2; strand=D; shift=10; score=0.751464; ----------cyrGGCATGTCTgg ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 87 99 288 33 94 7 571 24 9 8 17 45 86 141 c 0 0 0 0 0 0 0 0 0 0 265 237 22 10 7 587 13 14 6 79 507 112 64 84 g 0 0 0 0 0 0 0 0 0 0 146 82 255 553 507 12 7 14 593 7 37 30 372 280 t 0 0 0 0 0 0 0 0 0 0 118 198 51 20 8 10 25 564 8 522 55 429 94 111

oligos_7nt_mkv4_m5_rc_shift11 (oligos_7nt_mkv4_m5_rc)
; positions_7nt_m2 versus oligos_7nt_mkv4_m5_rc; m=12/17; ncol2=12; w=0; offset=3; strand=R; shift=11; score=0.677958; -----------yrGGCAwGTCys- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 111 202 19 50 8 560 355 1 17 8 125 113 0 c 0 0 0 0 0 0 0 0 0 0 0 194 34 14 14 573 12 16 14 45 555 229 178 0 g 0 0 0 0 0 0 0 0 0 0 0 84 272 549 528 11 10 26 577 12 11 43 189 0 t 0 0 0 0 0 0 0 0 0 0 0 208 89 15 5 5 15 200 5 523 23 200 117 0

positions_7nt_m3_shift9 (positions_7nt_m3)
; positions_7nt_m2 versus positions_7nt_m3; m=13/17; ncol2=16; w=0; offset=1; strand=D; shift=9; score=0.66078; ---------yyCAGACATGTCTGr ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 35 58 37 231 15 234 7 289 15 2 6 11 22 38 82 c 0 0 0 0 0 0 0 0 0 120 124 221 11 7 5 306 8 4 1 71 283 52 20 52 g 0 0 0 0 0 0 0 0 0 37 52 20 52 283 71 1 4 8 306 5 7 11 221 124 t 0 0 0 0 0 0 0 0 0 124 82 38 22 11 6 2 15 289 7 234 15 231 37 58

oligos_6nt_mkv3_m1_rc_shift0 (oligos_6nt_mkv3_m1_rc)
; positions_7nt_m2 versus oligos_6nt_mkv3_m1_rc; m=14/17; ncol2=24; w=-8; offset=-8; strand=R; shift=0; score=0.619714; skrGrCATGyCyGGrCATGyCyms ; cor=; Ncor= a 114 112 154 84 329 7 422 44 2 13 20 34 143 35 167 3 490 101 17 26 44 81 168 112 c 156 136 38 25 22 535 28 10 3 358 513 192 13 5 4 563 22 17 9 178 416 304 163 202 g 180 154 315 420 196 11 17 22 565 6 7 16 390 508 387 2 8 20 542 15 22 33 139 149 t 123 171 66 44 26 20 106 497 3 196 33 331 27 25 15 5 53 435 5 354 91 155 103 110

oligos_7nt_mkv4_m4_rc_shift10 (oligos_7nt_mkv4_m4_rc)
; positions_7nt_m2 versus oligos_7nt_mkv4_m4_rc; m=15/17; ncol2=11; w=0; offset=2; strand=R; shift=10; score=0.591927; ----------syGGGCtTGyc--- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 59 83 7 5 17 10 117 7 8 51 83 0 0 0 c 0 0 0 0 0 0 0 0 0 0 222 144 5 16 10 451 23 17 17 127 211 0 0 0 g 0 0 0 0 0 0 0 0 0 0 137 102 461 450 443 11 35 33 447 100 91 0 0 0 t 0 0 0 0 0 0 0 0 0 0 59 148 4 6 7 5 302 420 5 199 92 0 0 0

oligos_7nt_mkv4_m3_shift11 (oligos_7nt_mkv4_m3)
; positions_7nt_m2 versus oligos_7nt_mkv4_m3; m=16/17; ncol2=12; w=0; offset=3; strand=D; shift=11; score=0.580165; -----------yrGACAAGTCyv- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 97 172 26 353 7 433 316 4 8 10 97 119 0 c 0 0 0 0 0 0 0 0 0 0 0 148 38 19 14 429 6 22 1 40 415 182 126 0 g 0 0 0 0 0 0 0 0 0 0 0 75 177 389 79 11 9 8 442 12 7 27 132 0 t 0 0 0 0 0 0 0 0 0 0 0 131 64 17 5 4 3 105 4 391 19 145 74 0

oligos_6nt_mkv3_m2_shift11 (oligos_6nt_mkv3_m2)
; positions_7nt_m2 versus oligos_6nt_mkv3_m2; m=17/17; ncol2=12; w=0; offset=3; strand=D; shift=11; score=0.570154; -----------hrgACAAGTCys- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 146 198 81 397 7 556 404 5 11 18 140 141 0 c 0 0 0 0 0 0 0 0 0 0 0 168 70 59 44 557 11 24 7 16 535 202 157 0 g 0 0 0 0 0 0 0 0 0 0 0 108 209 350 116 12 9 15 560 6 6 54 172 0 t 0 0 0 0 0 0 0 0 0 0 0 159 104 91 24 5 5 138 9 548 22 185 111 0

One-to-n matrix alignment; reference matrix: positions_6nt_m2_shift3 ; 19 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
positions_6nt_m2_shift3 (positions_6nt_m2)
; positions_6nt_m2; m=0 (reference); ncol1=15; shift=3; ncol=18; ---crrACATGCCCagrc ; Alignment reference a 0 0 0 187 285 296 736 7 734 37 16 21 45 40 500 88 316 181 c 0 0 0 255 121 111 22 812 36 13 6 725 763 671 68 127 136 454 g 0 0 0 197 310 368 75 18 21 23 809 7 17 12 180 552 296 123 t 0 0 0 207 130 71 13 9 55 773 15 93 21 123 98 79 98 88

positions_6nt_m2_shift3 (positions_6nt_m2)
; positions_6nt_m2 versus positions_6nt_m2; m=1/18; ncol2=15; w=0; offset=0; strand=D; shift=3; score= 1; ---crrACATGCCCagrc ; cor=; Ncor= a 0 0 0 187 285 296 736 7 734 37 16 21 45 40 500 88 316 181 c 0 0 0 255 121 111 22 812 36 13 6 725 763 671 68 127 136 454 g 0 0 0 197 310 368 75 18 21 23 809 7 17 12 180 552 296 123 t 0 0 0 207 130 71 13 9 55 773 15 93 21 123 98 79 98 88

positions_7nt_m2_rc_shift2 (positions_7nt_m2_rc)
; positions_6nt_m2 versus positions_7nt_m2_rc; m=2/18; ncol2=16; w=-1; offset=-1; strand=R; shift=2; score=0.917578; --cyrGACATGCCCagrc ; cor=; Ncor= a 0 0 140 169 232 107 656 4 704 40 10 12 29 38 497 106 315 167 c 0 0 333 240 44 67 19 788 33 18 6 699 740 668 70 166 110 419 g 0 0 198 182 452 612 135 19 17 20 799 12 23 18 169 475 302 149 t 0 0 151 231 94 36 12 11 68 744 7 99 30 98 86 75 95 87

positions_6nt_m1_shift1 (positions_6nt_m1)
; positions_6nt_m2 versus positions_6nt_m1; m=3/18; ncol2=17; w=-2; offset=-2; strand=D; shift=1; score=0.858211; -ycyrGACATGCCCagrc ; cor=; Ncor= a 0 126 136 150 231 81 622 4 698 32 7 19 18 42 444 101 310 160 c 0 323 337 218 43 48 21 769 19 14 6 658 726 608 67 153 111 417 g 0 91 181 144 430 634 139 17 14 19 778 10 15 21 193 475 297 135 t 0 255 141 283 91 32 13 5 64 730 4 108 36 124 91 66 77 83

positions_7nt_m1_shift1 (positions_7nt_m1)
; positions_6nt_m2 versus positions_7nt_m1; m=4/18; ncol2=17; w=-2; offset=-2; strand=D; shift=1; score=0.849613; -yccaGACATGCCCagrc ; cor=; Ncor= a 0 111 127 107 449 74 578 8 611 38 9 17 43 27 447 97 304 157 c 0 310 303 386 41 70 12 686 35 11 5 592 620 584 53 143 99 365 g 0 80 151 112 142 537 115 13 14 15 695 5 18 13 133 401 231 117 t 0 213 133 109 82 33 9 7 54 650 5 100 33 90 81 73 80 75

positions_6nt_m3_shift0 (positions_6nt_m3)
; positions_6nt_m2 versus positions_6nt_m3; m=5/18; ncol2=18; w=-3; offset=-3; strand=D; shift=0; score=0.806154; gyccrGACATGCCCagrc ; cor=; Ncor= a 92 120 129 132 443 72 682 10 746 51 10 15 44 44 481 120 344 186 c 187 394 435 399 54 56 19 837 36 17 8 728 769 662 82 175 117 430 g 472 91 160 149 270 714 157 14 19 23 847 10 23 27 196 504 312 159 t 119 265 146 190 103 28 12 9 69 779 5 117 34 137 111 71 97 95

oligos_7nt_mkv4_m1_shift2 (oligos_7nt_mkv4_m1)
; positions_6nt_m2 versus oligos_7nt_mkv4_m1; m=6/18; ncol2=19; w=-1; offset=-1; strand=D; shift=2; score=0.75497; --skgGACATGCCCAGrC ; cor=; Ncor= a 0 0 106 123 130 97 429 7 483 42 6 7 21 18 416 35 171 49 c 0 0 196 138 31 41 16 557 24 16 4 466 531 500 17 31 34 463 g 0 0 185 157 356 416 126 15 20 23 572 6 8 11 116 496 361 44 t 0 0 98 167 68 31 14 6 58 504 3 106 25 56 36 23 19 29

positions_6nt_m5_rc_shift1 (positions_6nt_m5_rc)
; positions_6nt_m2 versus positions_6nt_m5_rc; m=7/18; ncol2=15; w=-2; offset=-2; strand=R; shift=1; score=0.712139; -yctrGACATGCCyrg-- ; cor=; Ncor= a 0 92 130 131 204 63 577 6 677 23 3 17 14 68 271 142 0 0 c 0 309 316 172 35 36 13 714 14 17 8 598 685 340 87 172 0 0 g 0 76 154 126 441 613 129 8 14 18 720 9 10 37 261 329 0 0 t 0 257 134 305 54 22 15 6 29 676 3 110 25 289 115 91 0 0

positions_7nt_m5_shift0 (positions_7nt_m5)
; positions_6nt_m2 versus positions_7nt_m5; m=8/18; ncol2=18; w=-3; offset=-3; strand=D; shift=0; score=0.709059; gyctGGGCATGCCCagrc ; cor=; Ncor= a 62 46 57 49 61 23 106 4 449 20 2 6 30 16 303 44 179 83 c 94 212 308 114 14 15 22 489 22 12 8 370 436 412 38 94 66 265 g 264 66 94 38 412 435 369 8 12 22 489 22 15 14 114 308 212 93 t 83 179 44 302 16 30 6 2 20 449 4 105 22 61 48 57 46 62

positions_6nt_m4_shift1 (positions_6nt_m4)
; positions_6nt_m2 versus positions_6nt_m4; m=9/18; ncol2=16; w=-2; offset=-2; strand=D; shift=1; score=0.708081; -ycygGACATGTCcrgr- ; cor=; Ncor= a 0 97 140 122 176 66 547 13 695 31 7 15 32 69 327 139 278 0 c 0 272 302 192 31 20 10 714 7 12 11 173 627 469 105 163 98 0 g 0 98 164 105 469 627 173 11 12 7 713 10 20 31 192 302 272 0 t 0 278 139 326 69 32 15 7 31 695 14 547 66 176 121 141 97 0

oligos_7nt_mkv4_m5_shift3 (oligos_7nt_mkv4_m5)
; positions_6nt_m2 versus oligos_7nt_mkv4_m5; m=10/18; ncol2=12; w=0; offset=0; strand=D; shift=3; score=0.698841; ---srGACwTGCCyr--- ; cor=; Ncor= a 0 0 0 117 200 23 523 5 200 15 5 5 15 89 208 0 0 0 c 0 0 0 189 43 11 12 577 26 10 11 528 549 272 84 0 0 0 g 0 0 0 178 229 555 45 14 16 12 573 14 14 34 194 0 0 0 t 0 0 0 113 125 8 17 1 355 560 8 50 19 202 111 0 0 0

positions_7nt_m4_rc_shift1 (positions_7nt_m4_rc)
; positions_6nt_m2 versus positions_7nt_m4_rc; m=11/18; ncol2=15; w=-2; offset=-2; strand=R; shift=1; score=0.691873; -yccAGACATGCCyrg-- ; cor=; Ncor= a 0 74 111 94 429 55 522 8 564 25 10 8 20 51 198 118 0 0 c 0 296 280 372 30 37 7 593 14 7 12 507 553 255 82 146 0 0 g 0 55 84 64 112 507 79 6 14 13 587 7 10 22 237 265 0 0 t 0 191 141 86 45 17 8 9 24 571 7 94 33 288 99 87 0 0

oligos_6nt_mkv3_m3_shift2 (oligos_6nt_mkv3_m3)
; positions_6nt_m2 versus oligos_6nt_mkv3_m3; m=12/18; ncol2=14; w=-1; offset=-1; strand=D; shift=2; score=0.685257; --cyrGACATGTCyrg-- ; cor=; Ncor= a 0 0 144 170 237 64 626 9 750 38 5 14 26 105 243 175 0 0 c 0 0 323 259 42 25 8 791 8 19 10 167 700 431 143 172 0 0 g 0 0 173 143 431 700 167 10 19 8 790 8 25 42 260 323 0 0 t 0 0 175 243 105 26 14 5 38 750 10 626 64 237 169 145 0 0

oligos_7nt_mkv4_m4_shift5 (oligos_7nt_mkv4_m4)
; positions_6nt_m2 versus oligos_7nt_mkv4_m4; m=13/18; ncol2=11; w=0; offset=2; strand=D; shift=5; score=0.626362; -----grCAaGCCCrs-- ; cor=; Ncor= a 0 0 0 0 0 92 199 5 420 302 5 7 6 4 148 59 0 0 c 0 0 0 0 0 91 100 447 33 35 11 443 450 461 102 137 0 0 g 0 0 0 0 0 211 127 17 17 23 451 10 16 5 144 222 0 0 t 0 0 0 0 0 83 51 8 7 117 10 17 5 7 83 59 0 0

positions_7nt_m3_shift1 (positions_7nt_m3)
; positions_6nt_m2 versus positions_7nt_m3; m=14/18; ncol2=16; w=-2; offset=-2; strand=D; shift=1; score=0.601262; -yyCAGACATGTCTGrr- ; cor=; Ncor= a 0 35 58 37 231 15 234 7 289 15 2 6 11 22 38 82 124 0 c 0 120 124 221 11 7 5 306 8 4 1 71 283 52 20 52 37 0 g 0 37 52 20 52 283 71 1 4 8 306 5 7 11 221 124 120 0 t 0 124 82 38 22 11 6 2 15 289 7 234 15 231 37 58 35 0

oligos_7nt_mkv4_m3_rc_shift3 (oligos_7nt_mkv4_m3_rc)
; positions_6nt_m2 versus oligos_7nt_mkv4_m3_rc; m=15/18; ncol2=12; w=0; offset=0; strand=R; shift=3; score=0.587531; ---brGACTTGTCyr--- ; cor=; Ncor= a 0 0 0 74 145 19 391 4 105 3 4 5 17 64 131 0 0 0 c 0 0 0 132 27 7 12 442 8 9 11 79 389 177 75 0 0 0 g 0 0 0 126 182 415 40 1 22 6 429 14 19 38 148 0 0 0 t 0 0 0 119 97 10 8 4 316 433 7 353 26 172 97 0 0 0

oligos_6nt_mkv3_m2_rc_shift3 (oligos_6nt_mkv3_m2_rc)
; positions_6nt_m2 versus oligos_6nt_mkv3_m2_rc; m=16/18; ncol2=12; w=0; offset=0; strand=R; shift=3; score=0.578619; ---srGACTTGTcyd--- ; cor=; Ncor= a 0 0 0 111 185 22 548 9 138 5 5 24 91 104 159 0 0 0 c 0 0 0 172 54 6 6 560 15 9 12 116 350 209 108 0 0 0 g 0 0 0 157 202 535 16 7 24 11 557 44 59 70 168 0 0 0 t 0 0 0 141 140 18 11 5 404 556 7 397 81 198 146 0 0 0

oligos_6nt_mkv3_m1_shift2 (oligos_6nt_mkv3_m1)
; positions_6nt_m2 versus oligos_6nt_mkv3_m1; m=17/18; ncol2=24; w=-1; offset=-1; strand=D; shift=2; score=0.573897; --skrGrCATGyCCrGrC ; cor=; Ncor= a 0 0 110 103 155 91 354 5 435 53 5 15 25 27 331 33 196 3 c 0 0 149 139 33 22 15 542 20 8 2 387 508 390 16 7 6 565 g 0 0 202 163 304 416 178 9 17 22 563 4 5 13 192 513 358 3 t 0 0 112 168 81 44 26 17 101 490 3 167 35 143 34 20 13 2

oligos_7nt_mkv4_m2_shift9 (oligos_7nt_mkv4_m2)
; positions_6nt_m2 versus oligos_7nt_mkv4_m2; m=18/18; ncol2=12; w=0; offset=6; strand=D; shift=9; score=0.426894; ---------tgCCCAGAC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 115 78 22 24 13 580 21 494 21 c 0 0 0 0 0 0 0 0 0 108 128 556 594 620 9 21 32 586 g 0 0 0 0 0 0 0 0 0 99 362 23 6 1 19 595 106 30 t 0 0 0 0 0 0 0 0 0 327 81 48 25 15 41 12 17 12

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv4_m2_shift7 ; 9 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv4_m2_shift7 (oligos_7nt_mkv4_m2)
; oligos_7nt_mkv4_m2; m=0 (reference); ncol1=12; shift=7; ncol=19; -------tgCCCAGACAtg ; Alignment reference a 0 0 0 0 0 0 0 115 78 22 24 13 580 21 494 21 602 145 125 c 0 0 0 0 0 0 0 108 128 556 594 620 9 21 32 586 17 125 80 g 0 0 0 0 0 0 0 99 362 23 6 1 19 595 106 30 7 127 366 t 0 0 0 0 0 0 0 327 81 48 25 15 41 12 17 12 23 252 78

oligos_7nt_mkv4_m2_shift7 (oligos_7nt_mkv4_m2)
; oligos_7nt_mkv4_m2 versus oligos_7nt_mkv4_m2; m=1/8; ncol2=12; w=0; offset=0; strand=D; shift=7; score= 1; -------tgCCCAGACAtg ; cor=; Ncor= a 0 0 0 0 0 0 0 115 78 22 24 13 580 21 494 21 602 145 125 c 0 0 0 0 0 0 0 108 128 556 594 620 9 21 32 586 17 125 80 g 0 0 0 0 0 0 0 99 362 23 6 1 19 595 106 30 7 127 366 t 0 0 0 0 0 0 0 327 81 48 25 15 41 12 17 12 23 252 78

oligos_7nt_mkv4_m1_shift0 (oligos_7nt_mkv4_m1)
; oligos_7nt_mkv4_m2 versus oligos_7nt_mkv4_m1; m=2/8; ncol2=19; w=-7; offset=-7; strand=D; shift=0; score=0.559598; skgGACATGCCCAGrCawG ; cor=; Ncor= a 106 123 130 97 429 7 483 42 6 7 21 18 416 35 171 49 397 159 70 c 196 138 31 41 16 557 24 16 4 466 531 500 17 31 34 463 82 64 57 g 185 157 356 416 126 15 20 23 572 6 8 11 116 496 361 44 39 77 398 t 98 167 68 31 14 6 58 504 3 106 25 56 36 23 19 29 67 285 60

positions_7nt_m4_rc_shift9 (positions_7nt_m4_rc)
; oligos_7nt_mkv4_m2 versus positions_7nt_m4_rc; m=3/8; ncol2=15; w=0; offset=2; strand=R; shift=9; score=0.498004; ---------yccAGACATG ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 74 111 94 429 55 522 8 564 25 10 c 0 0 0 0 0 0 0 0 0 296 280 372 30 37 7 593 14 7 12 g 0 0 0 0 0 0 0 0 0 55 84 64 112 507 79 6 14 13 587 t 0 0 0 0 0 0 0 0 0 191 141 86 45 17 8 9 24 571 7

positions_6nt_m3_shift8 (positions_6nt_m3)
; oligos_7nt_mkv4_m2 versus positions_6nt_m3; m=4/8; ncol2=18; w=0; offset=1; strand=D; shift=8; score=0.470932; --------gyccrGACATG ; cor=; Ncor= a 0 0 0 0 0 0 0 0 92 120 129 132 443 72 682 10 746 51 10 c 0 0 0 0 0 0 0 0 187 394 435 399 54 56 19 837 36 17 8 g 0 0 0 0 0 0 0 0 472 91 160 149 270 714 157 14 19 23 847 t 0 0 0 0 0 0 0 0 119 265 146 190 103 28 12 9 69 779 5

positions_7nt_m3_shift9 (positions_7nt_m3)
; oligos_7nt_mkv4_m2 versus positions_7nt_m3; m=5/8; ncol2=16; w=0; offset=2; strand=D; shift=9; score=0.464237; ---------yyCAGACATG ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 35 58 37 231 15 234 7 289 15 2 c 0 0 0 0 0 0 0 0 0 120 124 221 11 7 5 306 8 4 1 g 0 0 0 0 0 0 0 0 0 37 52 20 52 283 71 1 4 8 306 t 0 0 0 0 0 0 0 0 0 124 82 38 22 11 6 2 15 289 7

positions_7nt_m1_shift9 (positions_7nt_m1)
; oligos_7nt_mkv4_m2 versus positions_7nt_m1; m=6/8; ncol2=17; w=0; offset=2; strand=D; shift=9; score=0.430169; ---------yccaGACATG ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 111 127 107 449 74 578 8 611 38 9 c 0 0 0 0 0 0 0 0 0 310 303 386 41 70 12 686 35 11 5 g 0 0 0 0 0 0 0 0 0 80 151 112 142 537 115 13 14 15 695 t 0 0 0 0 0 0 0 0 0 213 133 109 82 33 9 7 54 650 5

positions_6nt_m2_shift1 (positions_6nt_m2)
; oligos_7nt_mkv4_m2 versus positions_6nt_m2; m=7/8; ncol2=15; w=-6; offset=-6; strand=D; shift=1; score=0.426894; -crrACATGCCCagrc--- ; cor=; Ncor= a 0 187 285 296 736 7 734 37 16 21 45 40 500 88 316 181 0 0 0 c 0 255 121 111 22 812 36 13 6 725 763 671 68 127 136 454 0 0 0 g 0 197 310 368 75 18 21 23 809 7 17 12 180 552 296 123 0 0 0 t 0 207 130 71 13 9 55 773 15 93 21 123 98 79 98 88 0 0 0

oligos_6nt_mkv3_m1_shift0 (oligos_6nt_mkv3_m1)
; oligos_7nt_mkv4_m2 versus oligos_6nt_mkv3_m1; m=8/8; ncol2=24; w=-7; offset=-7; strand=D; shift=0; score=0.424649; skrGrCATGyCCrGrCATG ; cor=; Ncor= a 110 103 155 91 354 5 435 53 5 15 25 27 331 33 196 3 497 106 20 c 149 139 33 22 15 542 20 8 2 387 508 390 16 7 6 565 22 17 11 g 202 163 304 416 178 9 17 22 563 4 5 13 192 513 358 3 10 28 535 t 112 168 81 44 26 17 101 490 3 167 35 143 34 20 13 2 44 422 7

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv4_m4_shift5 ; 16 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv4_m4_shift5 (oligos_7nt_mkv4_m4)
; oligos_7nt_mkv4_m4; m=0 (reference); ncol1=11; shift=5; ncol=16; -----grCAaGCCCrs ; Alignment reference a 0 0 0 0 0 92 199 5 420 302 5 7 6 4 148 59 c 0 0 0 0 0 91 100 447 33 35 11 443 450 461 102 137 g 0 0 0 0 0 211 127 17 17 23 451 10 16 5 144 222 t 0 0 0 0 0 83 51 8 7 117 10 17 5 7 83 59

oligos_7nt_mkv4_m4_shift5 (oligos_7nt_mkv4_m4)
; oligos_7nt_mkv4_m4 versus oligos_7nt_mkv4_m4; m=1/15; ncol2=11; w=0; offset=0; strand=D; shift=5; score= 1; -----grCAaGCCCrs ; cor=; Ncor= a 0 0 0 0 0 92 199 5 420 302 5 7 6 4 148 59 c 0 0 0 0 0 91 100 447 33 35 11 443 450 461 102 137 g 0 0 0 0 0 211 127 17 17 23 451 10 16 5 144 222 t 0 0 0 0 0 83 51 8 7 117 10 17 5 7 83 59

positions_6nt_m2_shift3 (positions_6nt_m2)
; oligos_7nt_mkv4_m4 versus positions_6nt_m2; m=2/15; ncol2=15; w=-2; offset=-2; strand=D; shift=3; score=0.626362; ---crrACATGCCCag ; cor=; Ncor= a 0 0 0 187 285 296 736 7 734 37 16 21 45 40 500 88 c 0 0 0 255 121 111 22 812 36 13 6 725 763 671 68 127 g 0 0 0 197 310 368 75 18 21 23 809 7 17 12 180 552 t 0 0 0 207 130 71 13 9 55 773 15 93 21 123 98 79

positions_6nt_m5_rc_shift1 (positions_6nt_m5_rc)
; oligos_7nt_mkv4_m4 versus positions_6nt_m5_rc; m=3/15; ncol2=15; w=-4; offset=-4; strand=R; shift=1; score=0.59655; -yctrGACATGCCyrg ; cor=; Ncor= a 0 92 130 131 204 63 577 6 677 23 3 17 14 68 271 142 c 0 309 316 172 35 36 13 714 14 17 8 598 685 340 87 172 g 0 76 154 126 441 613 129 8 14 18 720 9 10 37 261 329 t 0 257 134 305 54 22 15 6 29 676 3 110 25 289 115 91

positions_7nt_m2_rc_shift2 (positions_7nt_m2_rc)
; oligos_7nt_mkv4_m4 versus positions_7nt_m2_rc; m=4/15; ncol2=16; w=-3; offset=-3; strand=R; shift=2; score=0.591927; --cyrGACATGCCCag ; cor=; Ncor= a 0 0 140 169 232 107 656 4 704 40 10 12 29 38 497 106 c 0 0 333 240 44 67 19 788 33 18 6 699 740 668 70 166 g 0 0 198 182 452 612 135 19 17 20 799 12 23 18 169 475 t 0 0 151 231 94 36 12 11 68 744 7 99 30 98 86 75

positions_7nt_m4_rc_shift1 (positions_7nt_m4_rc)
; oligos_7nt_mkv4_m4 versus positions_7nt_m4_rc; m=5/15; ncol2=15; w=-4; offset=-4; strand=R; shift=1; score=0.582337; -yccAGACATGCCyrg ; cor=; Ncor= a 0 74 111 94 429 55 522 8 564 25 10 8 20 51 198 118 c 0 296 280 372 30 37 7 593 14 7 12 507 553 255 82 146 g 0 55 84 64 112 507 79 6 14 13 587 7 10 22 237 265 t 0 191 141 86 45 17 8 9 24 571 7 94 33 288 99 87

oligos_7nt_mkv4_m3_shift3 (oligos_7nt_mkv4_m3)
; oligos_7nt_mkv4_m4 versus oligos_7nt_mkv4_m3; m=6/15; ncol2=12; w=-2; offset=-2; strand=D; shift=3; score=0.561598; ---yrGACAAGTCyv- ; cor=; Ncor= a 0 0 0 97 172 26 353 7 433 316 4 8 10 97 119 0 c 0 0 0 148 38 19 14 429 6 22 1 40 415 182 126 0 g 0 0 0 75 177 389 79 11 9 8 442 12 7 27 132 0 t 0 0 0 131 64 17 5 4 3 105 4 391 19 145 74 0

positions_7nt_m1_shift1 (positions_7nt_m1)
; oligos_7nt_mkv4_m4 versus positions_7nt_m1; m=7/15; ncol2=17; w=-4; offset=-4; strand=D; shift=1; score=0.553285; -yccaGACATGCCCag ; cor=; Ncor= a 0 111 127 107 449 74 578 8 611 38 9 17 43 27 447 97 c 0 310 303 386 41 70 12 686 35 11 5 592 620 584 53 143 g 0 80 151 112 142 537 115 13 14 15 695 5 18 13 133 401 t 0 213 133 109 82 33 9 7 54 650 5 100 33 90 81 73

positions_6nt_m1_shift1 (positions_6nt_m1)
; oligos_7nt_mkv4_m4 versus positions_6nt_m1; m=8/15; ncol2=17; w=-4; offset=-4; strand=D; shift=1; score=0.553022; -ycyrGACATGCCCag ; cor=; Ncor= a 0 126 136 150 231 81 622 4 698 32 7 19 18 42 444 101 c 0 323 337 218 43 48 21 769 19 14 6 658 726 608 67 153 g 0 91 181 144 430 634 139 17 14 19 778 10 15 21 193 475 t 0 255 141 283 91 32 13 5 64 730 4 108 36 124 91 66

oligos_6nt_mkv3_m3_rc_shift2 (oligos_6nt_mkv3_m3_rc)
; oligos_7nt_mkv4_m4 versus oligos_6nt_mkv3_m3_rc; m=9/15; ncol2=14; w=-3; offset=-3; strand=R; shift=2; score=0.550571; --cyrGACATGTCyrg ; cor=; Ncor= a 0 0 145 169 237 64 626 10 750 38 5 14 26 105 243 175 c 0 0 323 260 42 25 8 790 8 19 10 167 700 431 143 173 g 0 0 172 143 431 700 167 10 19 8 791 8 25 42 259 323 t 0 0 175 243 105 26 14 5 38 750 9 626 64 237 170 144

oligos_7nt_mkv4_m5_shift3 (oligos_7nt_mkv4_m5)
; oligos_7nt_mkv4_m4 versus oligos_7nt_mkv4_m5; m=10/15; ncol2=12; w=-2; offset=-2; strand=D; shift=3; score=0.549349; ---srGACwTGCCyr- ; cor=; Ncor= a 0 0 0 117 200 23 523 5 200 15 5 5 15 89 208 0 c 0 0 0 189 43 11 12 577 26 10 11 528 549 272 84 0 g 0 0 0 178 229 555 45 14 16 12 573 14 14 34 194 0 t 0 0 0 113 125 8 17 1 355 560 8 50 19 202 111 0

oligos_6nt_mkv3_m2_shift3 (oligos_6nt_mkv3_m2)
; oligos_7nt_mkv4_m4 versus oligos_6nt_mkv3_m2; m=11/15; ncol2=12; w=-2; offset=-2; strand=D; shift=3; score=0.547905; ---hrgACAAGTCys- ; cor=; Ncor= a 0 0 0 146 198 81 397 7 556 404 5 11 18 140 141 0 c 0 0 0 168 70 59 44 557 11 24 7 16 535 202 157 0 g 0 0 0 108 209 350 116 12 9 15 560 6 6 54 172 0 t 0 0 0 159 104 91 24 5 5 138 9 548 22 185 111 0

positions_6nt_m3_shift0 (positions_6nt_m3)
; oligos_7nt_mkv4_m4 versus positions_6nt_m3; m=12/15; ncol2=18; w=-5; offset=-5; strand=D; shift=0; score=0.522932; gyccrGACATGCCCag ; cor=; Ncor= a 92 120 129 132 443 72 682 10 746 51 10 15 44 44 481 120 c 187 394 435 399 54 56 19 837 36 17 8 728 769 662 82 175 g 472 91 160 149 270 714 157 14 19 23 847 10 23 27 196 504 t 119 265 146 190 103 28 12 9 69 779 5 117 34 137 111 71

positions_7nt_m5_shift0 (positions_7nt_m5)
; oligos_7nt_mkv4_m4 versus positions_7nt_m5; m=13/15; ncol2=18; w=-5; offset=-5; strand=D; shift=0; score=0.507732; gyctGGGCATGCCCag ; cor=; Ncor= a 62 46 57 49 61 23 106 4 449 20 2 6 30 16 303 44 c 94 212 308 114 14 15 22 489 22 12 8 370 436 412 38 94 g 264 66 94 38 412 435 369 8 12 22 489 22 15 14 114 308 t 83 179 44 302 16 30 6 2 20 449 4 105 22 61 48 57

positions_6nt_m4_rc_shift1 (positions_6nt_m4_rc)
; oligos_7nt_mkv4_m4 versus positions_6nt_m4_rc; m=14/15; ncol2=16; w=-4; offset=-4; strand=R; shift=1; score=0.497501; -ycygGACATGTCcrg ; cor=; Ncor= a 0 97 141 121 176 66 547 14 695 31 7 15 32 69 326 139 c 0 272 302 192 31 20 10 713 7 12 11 173 627 469 105 164 g 0 98 163 105 469 627 173 11 12 7 714 10 20 31 192 302 t 0 278 139 327 69 32 15 7 31 695 13 547 66 176 122 140

oligos_7nt_mkv4_m1_shift2 (oligos_7nt_mkv4_m1)
; oligos_7nt_mkv4_m4 versus oligos_7nt_mkv4_m1; m=15/15; ncol2=19; w=-3; offset=-3; strand=D; shift=2; score=0.492441; --skgGACATGCCCAG ; cor=; Ncor= a 0 0 106 123 130 97 429 7 483 42 6 7 21 18 416 35 c 0 0 196 138 31 41 16 557 24 16 4 466 531 500 17 31 g 0 0 185 157 356 416 126 15 20 23 572 6 8 11 116 496 t 0 0 98 167 68 31 14 6 58 504 3 106 25 56 36 23

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
positions_6nt_m1_shift1 (positions_6nt_m1)				; positions_6nt_m1; m=0 (reference); ncol1=17; shift=1; ncol=18; -ycyrGACATGCCCagrc ; Alignment reference a 0 126 136 150 231 81 622 4 698 32 7 19 18 42 444 101 310 160 c 0 323 337 218 43 48 21 769 19 14 6 658 726 608 67 153 111 417 g 0 91 181 144 430 634 139 17 14 19 778 10 15 21 193 475 297 135 t 0 255 141 283 91 32 13 5 64 730 4 108 36 124 91 66 77 83
positions_6nt_m1_shift1 (positions_6nt_m1)				; positions_6nt_m1 versus positions_6nt_m1; m=1/17; ncol2=17; w=0; offset=0; strand=D; shift=1; score= 1; -ycyrGACATGCCCagrc ; cor=; Ncor= a 0 126 136 150 231 81 622 4 698 32 7 19 18 42 444 101 310 160 c 0 323 337 218 43 48 21 769 19 14 6 658 726 608 67 153 111 417 g 0 91 181 144 430 634 139 17 14 19 778 10 15 21 193 475 297 135 t 0 255 141 283 91 32 13 5 64 730 4 108 36 124 91 66 77 83
positions_7nt_m1_shift1 (positions_7nt_m1)				; positions_6nt_m1 versus positions_7nt_m1; m=2/17; ncol2=17; w=0; offset=0; strand=D; shift=1; score=0.965884; -yccaGACATGCCCagrc ; cor=; Ncor= a 0 111 127 107 449 74 578 8 611 38 9 17 43 27 447 97 304 157 c 0 310 303 386 41 70 12 686 35 11 5 592 620 584 53 143 99 365 g 0 80 151 112 142 537 115 13 14 15 695 5 18 13 133 401 231 117 t 0 213 133 109 82 33 9 7 54 650 5 100 33 90 81 73 80 75
positions_7nt_m2_rc_shift2 (positions_7nt_m2_rc)				; positions_6nt_m1 versus positions_7nt_m2_rc; m=3/17; ncol2=16; w=0; offset=1; strand=R; shift=2; score=0.93908; --cyrGACATGCCCagrc ; cor=; Ncor= a 0 0 140 169 232 107 656 4 704 40 10 12 29 38 497 106 315 167 c 0 0 333 240 44 67 19 788 33 18 6 699 740 668 70 166 110 419 g 0 0 198 182 452 612 135 19 17 20 799 12 23 18 169 475 302 149 t 0 0 151 231 94 36 12 11 68 744 7 99 30 98 86 75 95 87
positions_6nt_m3_shift0 (positions_6nt_m3)				; positions_6nt_m1 versus positions_6nt_m3; m=4/17; ncol2=18; w=-1; offset=-1; strand=D; shift=0; score=0.929305; gyccrGACATGCCCagrc ; cor=; Ncor= a 92 120 129 132 443 72 682 10 746 51 10 15 44 44 481 120 344 186 c 187 394 435 399 54 56 19 837 36 17 8 728 769 662 82 175 117 430 g 472 91 160 149 270 714 157 14 19 23 847 10 23 27 196 504 312 159 t 119 265 146 190 103 28 12 9 69 779 5 117 34 137 111 71 97 95
positions_7nt_m5_shift0 (positions_7nt_m5)				; positions_6nt_m1 versus positions_7nt_m5; m=5/17; ncol2=18; w=-1; offset=-1; strand=D; shift=0; score=0.86862; gyctGGGCATGCCCagrc ; cor=; Ncor= a 62 46 57 49 61 23 106 4 449 20 2 6 30 16 303 44 179 83 c 94 212 308 114 14 15 22 489 22 12 8 370 436 412 38 94 66 265 g 264 66 94 38 412 435 369 8 12 22 489 22 15 14 114 308 212 93 t 83 179 44 302 16 30 6 2 20 449 4 105 22 61 48 57 46 62
positions_6nt_m4_shift1 (positions_6nt_m4)				; positions_6nt_m1 versus positions_6nt_m4; m=6/17; ncol2=16; w=0; offset=0; strand=D; shift=1; score=0.862943; -ycygGACATGTCcrgr- ; cor=; Ncor= a 0 97 140 122 176 66 547 13 695 31 7 15 32 69 327 139 278 0 c 0 272 302 192 31 20 10 714 7 12 11 173 627 469 105 163 98 0 g 0 98 164 105 469 627 173 11 12 7 713 10 20 31 192 302 272 0 t 0 278 139 326 69 32 15 7 31 695 14 547 66 176 121 141 97 0
positions_6nt_m5_rc_shift1 (positions_6nt_m5_rc)				; positions_6nt_m1 versus positions_6nt_m5_rc; m=7/17; ncol2=15; w=0; offset=0; strand=R; shift=1; score=0.861126; -yctrGACATGCCyrg-- ; cor=; Ncor= a 0 92 130 131 204 63 577 6 677 23 3 17 14 68 271 142 0 0 c 0 309 316 172 35 36 13 714 14 17 8 598 685 340 87 172 0 0 g 0 76 154 126 441 613 129 8 14 18 720 9 10 37 261 329 0 0 t 0 257 134 305 54 22 15 6 29 676 3 110 25 289 115 91 0 0
positions_6nt_m2_shift3 (positions_6nt_m2)				; positions_6nt_m1 versus positions_6nt_m2; m=8/17; ncol2=15; w=0; offset=2; strand=D; shift=3; score=0.858211; ---crrACATGCCCagrc ; cor=; Ncor= a 0 0 0 187 285 296 736 7 734 37 16 21 45 40 500 88 316 181 c 0 0 0 255 121 111 22 812 36 13 6 725 763 671 68 127 136 454 g 0 0 0 197 310 368 75 18 21 23 809 7 17 12 180 552 296 123 t 0 0 0 207 130 71 13 9 55 773 15 93 21 123 98 79 98 88
positions_7nt_m4_rc_shift1 (positions_7nt_m4_rc)				; positions_6nt_m1 versus positions_7nt_m4_rc; m=9/17; ncol2=15; w=0; offset=0; strand=R; shift=1; score=0.813271; -yccAGACATGCCyrg-- ; cor=; Ncor= a 0 74 111 94 429 55 522 8 564 25 10 8 20 51 198 118 0 0 c 0 296 280 372 30 37 7 593 14 7 12 507 553 255 82 146 0 0 g 0 55 84 64 112 507 79 6 14 13 587 7 10 22 237 265 0 0 t 0 191 141 86 45 17 8 9 24 571 7 94 33 288 99 87 0 0
oligos_7nt_mkv4_m1_shift2 (oligos_7nt_mkv4_m1)				; positions_6nt_m1 versus oligos_7nt_mkv4_m1; m=10/17; ncol2=19; w=0; offset=1; strand=D; shift=2; score=0.774791; --skgGACATGCCCAGrC ; cor=; Ncor= a 0 0 106 123 130 97 429 7 483 42 6 7 21 18 416 35 171 49 c 0 0 196 138 31 41 16 557 24 16 4 466 531 500 17 31 34 463 g 0 0 185 157 356 416 126 15 20 23 572 6 8 11 116 496 361 44 t 0 0 98 167 68 31 14 6 58 504 3 106 25 56 36 23 19 29
oligos_6nt_mkv3_m3_rc_shift2 (oligos_6nt_mkv3_m3_rc)				; positions_6nt_m1 versus oligos_6nt_mkv3_m3_rc; m=11/17; ncol2=14; w=0; offset=1; strand=R; shift=2; score=0.738389; --cyrGACATGTCyrg-- ; cor=; Ncor= a 0 0 145 169 237 64 626 10 750 38 5 14 26 105 243 175 0 0 c 0 0 323 260 42 25 8 790 8 19 10 167 700 431 143 173 0 0 g 0 0 172 143 431 700 167 10 19 8 791 8 25 42 259 323 0 0 t 0 0 175 243 105 26 14 5 38 750 9 626 64 237 170 144 0 0
positions_7nt_m3_shift1 (positions_7nt_m3)				; positions_6nt_m1 versus positions_7nt_m3; m=12/17; ncol2=16; w=0; offset=0; strand=D; shift=1; score=0.727513; -yyCAGACATGTCTGrr- ; cor=; Ncor= a 0 35 58 37 231 15 234 7 289 15 2 6 11 22 38 82 124 0 c 0 120 124 221 11 7 5 306 8 4 1 71 283 52 20 52 37 0 g 0 37 52 20 52 283 71 1 4 8 306 5 7 11 221 124 120 0 t 0 124 82 38 22 11 6 2 15 289 7 234 15 231 37 58 35 0
oligos_7nt_mkv4_m5_shift3 (oligos_7nt_mkv4_m5)				; positions_6nt_m1 versus oligos_7nt_mkv4_m5; m=13/17; ncol2=12; w=0; offset=2; strand=D; shift=3; score=0.641704; ---srGACwTGCCyr--- ; cor=; Ncor= a 0 0 0 117 200 23 523 5 200 15 5 5 15 89 208 0 0 0 c 0 0 0 189 43 11 12 577 26 10 11 528 549 272 84 0 0 0 g 0 0 0 178 229 555 45 14 16 12 573 14 14 34 194 0 0 0 t 0 0 0 113 125 8 17 1 355 560 8 50 19 202 111 0 0 0
oligos_6nt_mkv3_m1_shift2 (oligos_6nt_mkv3_m1)				; positions_6nt_m1 versus oligos_6nt_mkv3_m1; m=14/17; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.598273; --skrGrCATGyCCrGrC ; cor=; Ncor= a 0 0 110 103 155 91 354 5 435 53 5 15 25 27 331 33 196 3 c 0 0 149 139 33 22 15 542 20 8 2 387 508 390 16 7 6 565 g 0 0 202 163 304 416 178 9 17 22 563 4 5 13 192 513 358 3 t 0 0 112 168 81 44 26 17 101 490 3 167 35 143 34 20 13 2
oligos_7nt_mkv4_m3_rc_shift3 (oligos_7nt_mkv4_m3_rc)				; positions_6nt_m1 versus oligos_7nt_mkv4_m3_rc; m=15/17; ncol2=12; w=0; offset=2; strand=R; shift=3; score=0.555901; ---brGACTTGTCyr--- ; cor=; Ncor= a 0 0 0 74 145 19 391 4 105 3 4 5 17 64 131 0 0 0 c 0 0 0 132 27 7 12 442 8 9 11 79 389 177 75 0 0 0 g 0 0 0 126 182 415 40 1 22 6 429 14 19 38 148 0 0 0 t 0 0 0 119 97 10 8 4 316 433 7 353 26 172 97 0 0 0
oligos_7nt_mkv4_m4_shift5 (oligos_7nt_mkv4_m4)				; positions_6nt_m1 versus oligos_7nt_mkv4_m4; m=16/17; ncol2=11; w=0; offset=4; strand=D; shift=5; score=0.553022; -----grCAaGCCCrs-- ; cor=; Ncor= a 0 0 0 0 0 92 199 5 420 302 5 7 6 4 148 59 0 0 c 0 0 0 0 0 91 100 447 33 35 11 443 450 461 102 137 0 0 g 0 0 0 0 0 211 127 17 17 23 451 10 16 5 144 222 0 0 t 0 0 0 0 0 83 51 8 7 117 10 17 5 7 83 59 0 0
oligos_6nt_mkv3_m2_rc_shift3 (oligos_6nt_mkv3_m2_rc)				; positions_6nt_m1 versus oligos_6nt_mkv3_m2_rc; m=17/17; ncol2=12; w=0; offset=2; strand=R; shift=3; score=0.54566; ---srGACTTGTcyd--- ; cor=; Ncor= a 0 0 0 111 185 22 548 9 138 5 5 24 91 104 159 0 0 0 c 0 0 0 172 54 6 6 560 15 9 12 116 350 209 108 0 0 0 g 0 0 0 157 202 535 16 7 24 11 557 44 59 70 168 0 0 0 t 0 0 0 141 140 18 11 5 404 556 7 397 81 198 146 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
positions_7nt_m1_shift2 (positions_7nt_m1)				; positions_7nt_m1; m=0 (reference); ncol1=17; shift=2; ncol=19; --yccaGACATGCCCagrc ; Alignment reference a 0 0 111 127 107 449 74 578 8 611 38 9 17 43 27 447 97 304 157 c 0 0 310 303 386 41 70 12 686 35 11 5 592 620 584 53 143 99 365 g 0 0 80 151 112 142 537 115 13 14 15 695 5 18 13 133 401 231 117 t 0 0 213 133 109 82 33 9 7 54 650 5 100 33 90 81 73 80 75
positions_7nt_m1_shift2 (positions_7nt_m1)				; positions_7nt_m1 versus positions_7nt_m1; m=1/18; ncol2=17; w=0; offset=0; strand=D; shift=2; score= 1; --yccaGACATGCCCagrc ; cor=; Ncor= a 0 0 111 127 107 449 74 578 8 611 38 9 17 43 27 447 97 304 157 c 0 0 310 303 386 41 70 12 686 35 11 5 592 620 584 53 143 99 365 g 0 0 80 151 112 142 537 115 13 14 15 695 5 18 13 133 401 231 117 t 0 0 213 133 109 82 33 9 7 54 650 5 100 33 90 81 73 80 75
positions_6nt_m1_shift2 (positions_6nt_m1)				; positions_7nt_m1 versus positions_6nt_m1; m=2/18; ncol2=17; w=0; offset=0; strand=D; shift=2; score=0.965884; --ycyrGACATGCCCagrc ; cor=; Ncor= a 0 0 126 136 150 231 81 622 4 698 32 7 19 18 42 444 101 310 160 c 0 0 323 337 218 43 48 21 769 19 14 6 658 726 608 67 153 111 417 g 0 0 91 181 144 430 634 139 17 14 19 778 10 15 21 193 475 297 135 t 0 0 255 141 283 91 32 13 5 64 730 4 108 36 124 91 66 77 83
positions_6nt_m3_shift1 (positions_6nt_m3)				; positions_7nt_m1 versus positions_6nt_m3; m=3/18; ncol2=18; w=-1; offset=-1; strand=D; shift=1; score=0.938416; -gyccrGACATGCCCagrc ; cor=; Ncor= a 0 92 120 129 132 443 72 682 10 746 51 10 15 44 44 481 120 344 186 c 0 187 394 435 399 54 56 19 837 36 17 8 728 769 662 82 175 117 430 g 0 472 91 160 149 270 714 157 14 19 23 847 10 23 27 196 504 312 159 t 0 119 265 146 190 103 28 12 9 69 779 5 117 34 137 111 71 97 95
positions_7nt_m2_rc_shift3 (positions_7nt_m2_rc)				; positions_7nt_m1 versus positions_7nt_m2_rc; m=4/18; ncol2=16; w=0; offset=1; strand=R; shift=3; score=0.911572; ---cyrGACATGCCCagrc ; cor=; Ncor= a 0 0 0 140 169 232 107 656 4 704 40 10 12 29 38 497 106 315 167 c 0 0 0 333 240 44 67 19 788 33 18 6 699 740 668 70 166 110 419 g 0 0 0 198 182 452 612 135 19 17 20 799 12 23 18 169 475 302 149 t 0 0 0 151 231 94 36 12 11 68 744 7 99 30 98 86 75 95 87
positions_6nt_m2_shift4 (positions_6nt_m2)				; positions_7nt_m1 versus positions_6nt_m2; m=5/18; ncol2=15; w=0; offset=2; strand=D; shift=4; score=0.849613; ----crrACATGCCCagrc ; cor=; Ncor= a 0 0 0 0 187 285 296 736 7 734 37 16 21 45 40 500 88 316 181 c 0 0 0 0 255 121 111 22 812 36 13 6 725 763 671 68 127 136 454 g 0 0 0 0 197 310 368 75 18 21 23 809 7 17 12 180 552 296 123 t 0 0 0 0 207 130 71 13 9 55 773 15 93 21 123 98 79 98 88
positions_7nt_m4_rc_shift2 (positions_7nt_m4_rc)				; positions_7nt_m1 versus positions_7nt_m4_rc; m=6/18; ncol2=15; w=0; offset=0; strand=R; shift=2; score=0.842085; --yccAGACATGCCyrg-- ; cor=; Ncor= a 0 0 74 111 94 429 55 522 8 564 25 10 8 20 51 198 118 0 0 c 0 0 296 280 372 30 37 7 593 14 7 12 507 553 255 82 146 0 0 g 0 0 55 84 64 112 507 79 6 14 13 587 7 10 22 237 265 0 0 t 0 0 191 141 86 45 17 8 9 24 571 7 94 33 288 99 87 0 0
positions_6nt_m5_rc_shift2 (positions_6nt_m5_rc)				; positions_7nt_m1 versus positions_6nt_m5_rc; m=7/18; ncol2=15; w=0; offset=0; strand=R; shift=2; score=0.815553; --yctrGACATGCCyrg-- ; cor=; Ncor= a 0 0 92 130 131 204 63 577 6 677 23 3 17 14 68 271 142 0 0 c 0 0 309 316 172 35 36 13 714 14 17 8 598 685 340 87 172 0 0 g 0 0 76 154 126 441 613 129 8 14 18 720 9 10 37 261 329 0 0 t 0 0 257 134 305 54 22 15 6 29 676 3 110 25 289 115 91 0 0
positions_6nt_m4_shift2 (positions_6nt_m4)				; positions_7nt_m1 versus positions_6nt_m4; m=8/18; ncol2=16; w=0; offset=0; strand=D; shift=2; score=0.815107; --ycygGACATGTCcrgr- ; cor=; Ncor= a 0 0 97 140 122 176 66 547 13 695 31 7 15 32 69 327 139 278 0 c 0 0 272 302 192 31 20 10 714 7 12 11 173 627 469 105 163 98 0 g 0 0 98 164 105 469 627 173 11 12 7 713 10 20 31 192 302 272 0 t 0 0 278 139 326 69 32 15 7 31 695 14 547 66 176 121 141 97 0
positions_7nt_m5_shift1 (positions_7nt_m5)				; positions_7nt_m1 versus positions_7nt_m5; m=9/18; ncol2=18; w=-1; offset=-1; strand=D; shift=1; score=0.800625; -gyctGGGCATGCCCagrc ; cor=; Ncor= a 0 62 46 57 49 61 23 106 4 449 20 2 6 30 16 303 44 179 83 c 0 94 212 308 114 14 15 22 489 22 12 8 370 436 412 38 94 66 265 g 0 264 66 94 38 412 435 369 8 12 22 489 22 15 14 114 308 212 93 t 0 83 179 44 302 16 30 6 2 20 449 4 105 22 61 48 57 46 62
positions_7nt_m3_shift2 (positions_7nt_m3)				; positions_7nt_m1 versus positions_7nt_m3; m=10/18; ncol2=16; w=0; offset=0; strand=D; shift=2; score=0.755292; --yyCAGACATGTCTGrr- ; cor=; Ncor= a 0 0 35 58 37 231 15 234 7 289 15 2 6 11 22 38 82 124 0 c 0 0 120 124 221 11 7 5 306 8 4 1 71 283 52 20 52 37 0 g 0 0 37 52 20 52 283 71 1 4 8 306 5 7 11 221 124 120 0 t 0 0 124 82 38 22 11 6 2 15 289 7 234 15 231 37 58 35 0
oligos_7nt_mkv4_m1_shift3 (oligos_7nt_mkv4_m1)				; positions_7nt_m1 versus oligos_7nt_mkv4_m1; m=11/18; ncol2=19; w=0; offset=1; strand=D; shift=3; score=0.741163; ---skgGACATGCCCAGrC ; cor=; Ncor= a 0 0 0 106 123 130 97 429 7 483 42 6 7 21 18 416 35 171 49 c 0 0 0 196 138 31 41 16 557 24 16 4 466 531 500 17 31 34 463 g 0 0 0 185 157 356 416 126 15 20 23 572 6 8 11 116 496 361 44 t 0 0 0 98 167 68 31 14 6 58 504 3 106 25 56 36 23 19 29
oligos_6nt_mkv3_m3_rc_shift3 (oligos_6nt_mkv3_m3_rc)				; positions_7nt_m1 versus oligos_6nt_mkv3_m3_rc; m=12/18; ncol2=14; w=0; offset=1; strand=R; shift=3; score=0.708195; ---cyrGACATGTCyrg-- ; cor=; Ncor= a 0 0 0 145 169 237 64 626 10 750 38 5 14 26 105 243 175 0 0 c 0 0 0 323 260 42 25 8 790 8 19 10 167 700 431 143 173 0 0 g 0 0 0 172 143 431 700 167 10 19 8 791 8 25 42 259 323 0 0 t 0 0 0 175 243 105 26 14 5 38 750 9 626 64 237 170 144 0 0
oligos_7nt_mkv4_m5_shift4 (oligos_7nt_mkv4_m5)				; positions_7nt_m1 versus oligos_7nt_mkv4_m5; m=13/18; ncol2=12; w=0; offset=2; strand=D; shift=4; score=0.626812; ----srGACwTGCCyr--- ; cor=; Ncor= a 0 0 0 0 117 200 23 523 5 200 15 5 5 15 89 208 0 0 0 c 0 0 0 0 189 43 11 12 577 26 10 11 528 549 272 84 0 0 0 g 0 0 0 0 178 229 555 45 14 16 12 573 14 14 34 194 0 0 0 t 0 0 0 0 113 125 8 17 1 355 560 8 50 19 202 111 0 0 0
oligos_6nt_mkv3_m1_shift3 (oligos_6nt_mkv3_m1)				; positions_7nt_m1 versus oligos_6nt_mkv3_m1; m=14/18; ncol2=24; w=0; offset=1; strand=D; shift=3; score=0.571534; ---skrGrCATGyCCrGrC ; cor=; Ncor= a 0 0 0 110 103 155 91 354 5 435 53 5 15 25 27 331 33 196 3 c 0 0 0 149 139 33 22 15 542 20 8 2 387 508 390 16 7 6 565 g 0 0 0 202 163 304 416 178 9 17 22 563 4 5 13 192 513 358 3 t 0 0 0 112 168 81 44 26 17 101 490 3 167 35 143 34 20 13 2
oligos_7nt_mkv4_m4_shift6 (oligos_7nt_mkv4_m4)				; positions_7nt_m1 versus oligos_7nt_mkv4_m4; m=15/18; ncol2=11; w=0; offset=4; strand=D; shift=6; score=0.553285; ------grCAaGCCCrs-- ; cor=; Ncor= a 0 0 0 0 0 0 92 199 5 420 302 5 7 6 4 148 59 0 0 c 0 0 0 0 0 0 91 100 447 33 35 11 443 450 461 102 137 0 0 g 0 0 0 0 0 0 211 127 17 17 23 451 10 16 5 144 222 0 0 t 0 0 0 0 0 0 83 51 8 7 117 10 17 5 7 83 59 0 0
oligos_7nt_mkv4_m3_rc_shift4 (oligos_7nt_mkv4_m3_rc)				; positions_7nt_m1 versus oligos_7nt_mkv4_m3_rc; m=16/18; ncol2=12; w=0; offset=2; strand=R; shift=4; score=0.536667; ----brGACTTGTCyr--- ; cor=; Ncor= a 0 0 0 0 74 145 19 391 4 105 3 4 5 17 64 131 0 0 0 c 0 0 0 0 132 27 7 12 442 8 9 11 79 389 177 75 0 0 0 g 0 0 0 0 126 182 415 40 1 22 6 429 14 19 38 148 0 0 0 t 0 0 0 0 119 97 10 8 4 316 433 7 353 26 172 97 0 0 0
oligos_6nt_mkv3_m2_rc_shift4 (oligos_6nt_mkv3_m2_rc)				; positions_7nt_m1 versus oligos_6nt_mkv3_m2_rc; m=17/18; ncol2=12; w=0; offset=2; strand=R; shift=4; score=0.532177; ----srGACTTGTcyd--- ; cor=; Ncor= a 0 0 0 0 111 185 22 548 9 138 5 5 24 91 104 159 0 0 0 c 0 0 0 0 172 54 6 6 560 15 9 12 116 350 209 108 0 0 0 g 0 0 0 0 157 202 535 16 7 24 11 557 44 59 70 168 0 0 0 t 0 0 0 0 141 140 18 11 5 404 556 7 397 81 198 146 0 0 0
oligos_7nt_mkv4_m2_shift0 (oligos_7nt_mkv4_m2)				; positions_7nt_m1 versus oligos_7nt_mkv4_m2; m=18/18; ncol2=12; w=-2; offset=-2; strand=D; shift=0; score=0.430169; tgCCCAGACAtg------- ; cor=; Ncor= a 115 78 22 24 13 580 21 494 21 602 145 125 0 0 0 0 0 0 0 c 108 128 556 594 620 9 21 32 586 17 125 80 0 0 0 0 0 0 0 g 99 362 23 6 1 19 595 106 30 7 127 366 0 0 0 0 0 0 0 t 327 81 48 25 15 41 12 17 12 23 252 78 0 0 0 0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_mkv3_m2_shift11 (oligos_6nt_mkv3_m2)				; oligos_6nt_mkv3_m2; m=0 (reference); ncol1=12; shift=11; ncol=23; -----------hrgACAAGTCys ; Alignment reference a 0 0 0 0 0 0 0 0 0 0 0 146 198 81 397 7 556 404 5 11 18 140 141 c 0 0 0 0 0 0 0 0 0 0 0 168 70 59 44 557 11 24 7 16 535 202 157 g 0 0 0 0 0 0 0 0 0 0 0 108 209 350 116 12 9 15 560 6 6 54 172 t 0 0 0 0 0 0 0 0 0 0 0 159 104 91 24 5 5 138 9 548 22 185 111
oligos_6nt_mkv3_m2_shift11 (oligos_6nt_mkv3_m2)				; oligos_6nt_mkv3_m2 versus oligos_6nt_mkv3_m2; m=1/16; ncol2=12; w=0; offset=0; strand=D; shift=11; score= 1; -----------hrgACAAGTCys ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 146 198 81 397 7 556 404 5 11 18 140 141 c 0 0 0 0 0 0 0 0 0 0 0 168 70 59 44 557 11 24 7 16 535 202 157 g 0 0 0 0 0 0 0 0 0 0 0 108 209 350 116 12 9 15 560 6 6 54 172 t 0 0 0 0 0 0 0 0 0 0 0 159 104 91 24 5 5 138 9 548 22 185 111
oligos_7nt_mkv4_m3_shift11 (oligos_7nt_mkv4_m3)				; oligos_6nt_mkv3_m2 versus oligos_7nt_mkv4_m3; m=2/16; ncol2=12; w=0; offset=0; strand=D; shift=11; score=0.985996; -----------yrGACAAGTCyv ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 97 172 26 353 7 433 316 4 8 10 97 119 c 0 0 0 0 0 0 0 0 0 0 0 148 38 19 14 429 6 22 1 40 415 182 126 g 0 0 0 0 0 0 0 0 0 0 0 75 177 389 79 11 9 8 442 12 7 27 132 t 0 0 0 0 0 0 0 0 0 0 0 131 64 17 5 4 3 105 4 391 19 145 74
oligos_7nt_mkv4_m5_rc_shift11 (oligos_7nt_mkv4_m5_rc)				; oligos_6nt_mkv3_m2 versus oligos_7nt_mkv4_m5_rc; m=3/16; ncol2=12; w=0; offset=0; strand=R; shift=11; score=0.88449; -----------yrGGCAwGTCys ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 111 202 19 50 8 560 355 1 17 8 125 113 c 0 0 0 0 0 0 0 0 0 0 0 194 34 14 14 573 12 16 14 45 555 229 178 g 0 0 0 0 0 0 0 0 0 0 0 84 272 549 528 11 10 26 577 12 11 43 189 t 0 0 0 0 0 0 0 0 0 0 0 208 89 15 5 5 15 200 5 523 23 200 117
oligos_6nt_mkv3_m3_shift10 (oligos_6nt_mkv3_m3)				; oligos_6nt_mkv3_m2 versus oligos_6nt_mkv3_m3; m=4/16; ncol2=14; w=-1; offset=-1; strand=D; shift=10; score=0.744156; ----------cyrGACATGTCyr ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 144 170 237 64 626 9 750 38 5 14 26 105 243 c 0 0 0 0 0 0 0 0 0 0 323 259 42 25 8 791 8 19 10 167 700 431 143 g 0 0 0 0 0 0 0 0 0 0 173 143 431 700 167 10 19 8 790 8 25 42 260 t 0 0 0 0 0 0 0 0 0 0 175 243 105 26 14 5 38 750 10 626 64 237 169
positions_6nt_m4_shift9 (positions_6nt_m4)				; oligos_6nt_mkv3_m2 versus positions_6nt_m4; m=5/16; ncol2=16; w=-2; offset=-2; strand=D; shift=9; score=0.632837; ---------ycygGACATGTCcr ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 97 140 122 176 66 547 13 695 31 7 15 32 69 327 c 0 0 0 0 0 0 0 0 0 272 302 192 31 20 10 714 7 12 11 173 627 469 105 g 0 0 0 0 0 0 0 0 0 98 164 105 469 627 173 11 12 7 713 10 20 31 192 t 0 0 0 0 0 0 0 0 0 278 139 326 69 32 15 7 31 695 14 547 66 176 121
positions_6nt_m5_shift10 (positions_6nt_m5)				; oligos_6nt_mkv3_m2 versus positions_6nt_m5; m=6/16; ncol2=15; w=-1; offset=-1; strand=D; shift=10; score=0.628507; ----------cyrGGCATGTCya ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 91 115 289 25 110 3 676 29 6 15 22 54 305 c 0 0 0 0 0 0 0 0 0 0 329 261 37 10 9 720 18 14 8 129 613 441 126 g 0 0 0 0 0 0 0 0 0 0 172 87 340 685 598 8 17 14 714 13 36 35 172 t 0 0 0 0 0 0 0 0 0 0 142 271 68 14 17 3 23 677 6 577 63 204 131
positions_7nt_m4_shift10 (positions_7nt_m4)				; oligos_6nt_mkv3_m2 versus positions_7nt_m4; m=7/16; ncol2=15; w=-1; offset=-1; strand=D; shift=10; score=0.619964; ----------cyrGGCATGTCTg ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 87 99 288 33 94 7 571 24 9 8 17 45 86 c 0 0 0 0 0 0 0 0 0 0 265 237 22 10 7 587 13 14 6 79 507 112 64 g 0 0 0 0 0 0 0 0 0 0 146 82 255 553 507 12 7 14 593 7 37 30 372 t 0 0 0 0 0 0 0 0 0 0 118 198 51 20 8 10 25 564 8 522 55 429 94
positions_7nt_m3_shift9 (positions_7nt_m3)				; oligos_6nt_mkv3_m2 versus positions_7nt_m3; m=8/16; ncol2=16; w=-2; offset=-2; strand=D; shift=9; score=0.60234; ---------yyCAGACATGTCTG ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 35 58 37 231 15 234 7 289 15 2 6 11 22 38 c 0 0 0 0 0 0 0 0 0 120 124 221 11 7 5 306 8 4 1 71 283 52 20 g 0 0 0 0 0 0 0 0 0 37 52 20 52 283 71 1 4 8 306 5 7 11 221 t 0 0 0 0 0 0 0 0 0 124 82 38 22 11 6 2 15 289 7 234 15 231 37
positions_6nt_m2_rc_shift8 (positions_6nt_m2_rc)				; oligos_6nt_mkv3_m2 versus positions_6nt_m2_rc; m=9/16; ncol2=15; w=-3; offset=-3; strand=R; shift=8; score=0.578619; --------gyctGGGCATGTyyg ; cor=; Ncor= a 0 0 0 0 0 0 0 0 88 98 79 98 123 21 93 15 773 55 9 13 71 130 207 c 0 0 0 0 0 0 0 0 123 296 552 180 12 17 7 809 23 21 18 75 368 310 197 g 0 0 0 0 0 0 0 0 454 136 127 68 671 763 725 6 13 36 812 22 111 121 255 t 0 0 0 0 0 0 0 0 181 316 88 500 40 45 21 16 37 734 7 736 296 285 187
positions_7nt_m2_shift8 (positions_7nt_m2)				; oligos_6nt_mkv3_m2 versus positions_7nt_m2; m=10/16; ncol2=16; w=-3; offset=-3; strand=D; shift=8; score=0.570154; --------gyctGGGCATGTCyr ; cor=; Ncor= a 0 0 0 0 0 0 0 0 87 95 75 86 98 30 99 7 744 68 11 12 36 94 231 c 0 0 0 0 0 0 0 0 149 302 475 169 18 23 12 799 20 17 19 135 612 452 182 g 0 0 0 0 0 0 0 0 419 110 166 70 668 740 699 6 18 33 788 19 67 44 240 t 0 0 0 0 0 0 0 0 167 315 106 497 38 29 12 10 40 704 4 656 107 232 169
oligos_7nt_mkv4_m4_shift13 (oligos_7nt_mkv4_m4)				; oligos_6nt_mkv3_m2 versus oligos_7nt_mkv4_m4; m=11/16; ncol2=11; w=0; offset=2; strand=D; shift=13; score=0.547905; -------------grCAaGCCCr ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 0 0 92 199 5 420 302 5 7 6 4 148 c 0 0 0 0 0 0 0 0 0 0 0 0 0 91 100 447 33 35 11 443 450 461 102 g 0 0 0 0 0 0 0 0 0 0 0 0 0 211 127 17 17 23 451 10 16 5 144 t 0 0 0 0 0 0 0 0 0 0 0 0 0 83 51 8 7 117 10 17 5 7 83
positions_6nt_m1_rc_shift8 (positions_6nt_m1_rc)				; oligos_6nt_mkv3_m2 versus positions_6nt_m1_rc; m=12/16; ncol2=17; w=-3; offset=-3; strand=R; shift=8; score=0.54566; --------gyctGGGCATGTCyr ; cor=; Ncor= a 0 0 0 0 0 0 0 0 83 77 66 91 124 36 108 4 730 64 5 13 32 91 283 c 0 0 0 0 0 0 0 0 135 297 475 193 21 15 10 778 19 14 17 139 634 430 144 g 0 0 0 0 0 0 0 0 417 111 153 67 608 726 658 6 14 19 769 21 48 43 218 t 0 0 0 0 0 0 0 0 160 310 101 444 42 18 19 7 32 698 4 622 81 231 150
positions_7nt_m1_rc_shift8 (positions_7nt_m1_rc)				; oligos_6nt_mkv3_m2 versus positions_7nt_m1_rc; m=13/16; ncol2=17; w=-3; offset=-3; strand=R; shift=8; score=0.532177; --------gyctGGGCATGTCtg ; cor=; Ncor= a 0 0 0 0 0 0 0 0 75 80 73 81 90 33 100 5 650 54 7 9 33 82 109 c 0 0 0 0 0 0 0 0 117 231 401 133 13 18 5 695 15 14 13 115 537 142 112 g 0 0 0 0 0 0 0 0 365 99 143 53 584 620 592 5 11 35 686 12 70 41 386 t 0 0 0 0 0 0 0 0 157 304 97 447 27 43 17 9 38 611 8 578 74 449 107
positions_6nt_m3_rc_shift8 (positions_6nt_m3_rc)				; oligos_6nt_mkv3_m2 versus positions_6nt_m3_rc; m=14/16; ncol2=18; w=-3; offset=-3; strand=R; shift=8; score=0.515839; --------gyctGGGCATGTCyg ; cor=; Ncor= a 0 0 0 0 0 0 0 0 95 97 71 111 137 34 117 5 779 69 9 12 28 103 190 c 0 0 0 0 0 0 0 0 159 312 504 196 27 23 10 847 23 19 14 157 714 270 149 g 0 0 0 0 0 0 0 0 430 117 175 82 662 769 728 8 17 36 837 19 56 54 399 t 0 0 0 0 0 0 0 0 186 344 120 481 44 44 15 10 51 746 10 682 72 443 132
oligos_7nt_mkv4_m1_rc_shift5 (oligos_7nt_mkv4_m1_rc)				; oligos_6nt_mkv3_m2 versus oligos_7nt_mkv4_m1_rc; m=15/16; ncol2=19; w=-6; offset=-6; strand=R; shift=5; score=0.472155; -----CwtGyCTGGGCATGTCcm ; cor=; Ncor= a 0 0 0 0 0 60 285 67 29 19 23 36 56 25 106 3 504 58 6 14 31 68 167 c 0 0 0 0 0 398 77 39 44 361 496 116 11 8 6 572 23 20 15 126 416 356 157 g 0 0 0 0 0 57 64 82 463 34 31 17 500 531 466 4 16 24 557 16 41 31 138 t 0 0 0 0 0 70 159 397 49 171 35 416 18 21 7 6 42 483 7 429 97 130 123
oligos_6nt_mkv3_m1_shift0 (oligos_6nt_mkv3_m1)				; oligos_6nt_mkv3_m2 versus oligos_6nt_mkv3_m1; m=16/16; ncol2=24; w=-11; offset=-11; strand=D; shift=0; score=0.402779; skrGrCATGyCCrGrCATGyCym ; cor=; Ncor= a 110 103 155 91 354 5 435 53 5 15 25 27 331 33 196 3 497 106 20 26 44 66 171 c 149 139 33 22 15 542 20 8 2 387 508 390 16 7 6 565 22 17 11 196 420 315 154 g 202 163 304 416 178 9 17 22 563 4 5 13 192 513 358 3 10 28 535 22 25 38 136 t 112 168 81 44 26 17 101 490 3 167 35 143 34 20 13 2 44 422 7 329 84 154 112

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_mkv3_m1_shift2 (oligos_6nt_mkv3_m1)				; oligos_6nt_mkv3_m1; m=0 (reference); ncol1=24; shift=2; ncol=26; --skrGrCATGyCCrGrCATGyCyms ; Alignment reference a 0 0 110 103 155 91 354 5 435 53 5 15 25 27 331 33 196 3 497 106 20 26 44 66 171 123 c 0 0 149 139 33 22 15 542 20 8 2 387 508 390 16 7 6 565 22 17 11 196 420 315 154 180 g 0 0 202 163 304 416 178 9 17 22 563 4 5 13 192 513 358 3 10 28 535 22 25 38 136 156 t 0 0 112 168 81 44 26 17 101 490 3 167 35 143 34 20 13 2 44 422 7 329 84 154 112 114
oligos_6nt_mkv3_m1_shift2 (oligos_6nt_mkv3_m1)				; oligos_6nt_mkv3_m1 versus oligos_6nt_mkv3_m1; m=1/17; ncol2=24; w=0; offset=0; strand=D; shift=2; score= 1; --skrGrCATGyCCrGrCATGyCyms ; cor=; Ncor= a 0 0 110 103 155 91 354 5 435 53 5 15 25 27 331 33 196 3 497 106 20 26 44 66 171 123 c 0 0 149 139 33 22 15 542 20 8 2 387 508 390 16 7 6 565 22 17 11 196 420 315 154 180 g 0 0 202 163 304 416 178 9 17 22 563 4 5 13 192 513 358 3 10 28 535 22 25 38 136 156 t 0 0 112 168 81 44 26 17 101 490 3 167 35 143 34 20 13 2 44 422 7 329 84 154 112 114
oligos_7nt_mkv4_m1_shift2 (oligos_7nt_mkv4_m1)				; oligos_6nt_mkv3_m1 versus oligos_7nt_mkv4_m1; m=2/17; ncol2=19; w=0; offset=0; strand=D; shift=2; score=0.766561; --skgGACATGCCCAGrCawG----- ; cor=; Ncor= a 0 0 106 123 130 97 429 7 483 42 6 7 21 18 416 35 171 49 397 159 70 0 0 0 0 0 c 0 0 196 138 31 41 16 557 24 16 4 466 531 500 17 31 34 463 82 64 57 0 0 0 0 0 g 0 0 185 157 356 416 126 15 20 23 572 6 8 11 116 496 361 44 39 77 398 0 0 0 0 0 t 0 0 98 167 68 31 14 6 58 504 3 106 25 56 36 23 19 29 67 285 60 0 0 0 0 0
positions_7nt_m2_rc_shift2 (positions_7nt_m2_rc)				; oligos_6nt_mkv3_m1 versus positions_7nt_m2_rc; m=3/17; ncol2=16; w=0; offset=0; strand=R; shift=2; score=0.619714; --cyrGACATGCCCagrc-------- ; cor=; Ncor= a 0 0 140 169 232 107 656 4 704 40 10 12 29 38 497 106 315 167 0 0 0 0 0 0 0 0 c 0 0 333 240 44 67 19 788 33 18 6 699 740 668 70 166 110 419 0 0 0 0 0 0 0 0 g 0 0 198 182 452 612 135 19 17 20 799 12 23 18 169 475 302 149 0 0 0 0 0 0 0 0 t 0 0 151 231 94 36 12 11 68 744 7 99 30 98 86 75 95 87 0 0 0 0 0 0 0 0
positions_6nt_m1_shift1 (positions_6nt_m1)				; oligos_6nt_mkv3_m1 versus positions_6nt_m1; m=4/17; ncol2=17; w=-1; offset=-1; strand=D; shift=1; score=0.598273; -ycyrGACATGCCCagrc-------- ; cor=; Ncor= a 0 126 136 150 231 81 622 4 698 32 7 19 18 42 444 101 310 160 0 0 0 0 0 0 0 0 c 0 323 337 218 43 48 21 769 19 14 6 658 726 608 67 153 111 417 0 0 0 0 0 0 0 0 g 0 91 181 144 430 634 139 17 14 19 778 10 15 21 193 475 297 135 0 0 0 0 0 0 0 0 t 0 255 141 283 91 32 13 5 64 730 4 108 36 124 91 66 77 83 0 0 0 0 0 0 0 0
positions_6nt_m2_shift3 (positions_6nt_m2)				; oligos_6nt_mkv3_m1 versus positions_6nt_m2; m=5/17; ncol2=15; w=0; offset=1; strand=D; shift=3; score=0.573897; ---crrACATGCCCagrc-------- ; cor=; Ncor= a 0 0 0 187 285 296 736 7 734 37 16 21 45 40 500 88 316 181 0 0 0 0 0 0 0 0 c 0 0 0 255 121 111 22 812 36 13 6 725 763 671 68 127 136 454 0 0 0 0 0 0 0 0 g 0 0 0 197 310 368 75 18 21 23 809 7 17 12 180 552 296 123 0 0 0 0 0 0 0 0 t 0 0 0 207 130 71 13 9 55 773 15 93 21 123 98 79 98 88 0 0 0 0 0 0 0 0
positions_7nt_m1_shift1 (positions_7nt_m1)				; oligos_6nt_mkv3_m1 versus positions_7nt_m1; m=6/17; ncol2=17; w=-1; offset=-1; strand=D; shift=1; score=0.571534; -yccaGACATGCCCagrc-------- ; cor=; Ncor= a 0 111 127 107 449 74 578 8 611 38 9 17 43 27 447 97 304 157 0 0 0 0 0 0 0 0 c 0 310 303 386 41 70 12 686 35 11 5 592 620 584 53 143 99 365 0 0 0 0 0 0 0 0 g 0 80 151 112 142 537 115 13 14 15 695 5 18 13 133 401 231 117 0 0 0 0 0 0 0 0 t 0 213 133 109 82 33 9 7 54 650 5 100 33 90 81 73 80 75 0 0 0 0 0 0 0 0
positions_6nt_m3_shift0 (positions_6nt_m3)				; oligos_6nt_mkv3_m1 versus positions_6nt_m3; m=7/17; ncol2=18; w=-2; offset=-2; strand=D; shift=0; score=0.560034; gyccrGACATGCCCagrc-------- ; cor=; Ncor= a 92 120 129 132 443 72 682 10 746 51 10 15 44 44 481 120 344 186 0 0 0 0 0 0 0 0 c 187 394 435 399 54 56 19 837 36 17 8 728 769 662 82 175 117 430 0 0 0 0 0 0 0 0 g 472 91 160 149 270 714 157 14 19 23 847 10 23 27 196 504 312 159 0 0 0 0 0 0 0 0 t 119 265 146 190 103 28 12 9 69 779 5 117 34 137 111 71 97 95 0 0 0 0 0 0 0 0
positions_7nt_m5_shift0 (positions_7nt_m5)				; oligos_6nt_mkv3_m1 versus positions_7nt_m5; m=8/17; ncol2=18; w=-2; offset=-2; strand=D; shift=0; score=0.542889; gyctGGGCATGCCCagrc-------- ; cor=; Ncor= a 62 46 57 49 61 23 106 4 449 20 2 6 30 16 303 44 179 83 0 0 0 0 0 0 0 0 c 94 212 308 114 14 15 22 489 22 12 8 370 436 412 38 94 66 265 0 0 0 0 0 0 0 0 g 264 66 94 38 412 435 369 8 12 22 489 22 15 14 114 308 212 93 0 0 0 0 0 0 0 0 t 83 179 44 302 16 30 6 2 20 449 4 105 22 61 48 57 46 62 0 0 0 0 0 0 0 0
positions_6nt_m4_shift1 (positions_6nt_m4)				; oligos_6nt_mkv3_m1 versus positions_6nt_m4; m=9/17; ncol2=16; w=-1; offset=-1; strand=D; shift=1; score=0.535689; -ycygGACATGTCcrgr--------- ; cor=; Ncor= a 0 97 140 122 176 66 547 13 695 31 7 15 32 69 327 139 278 0 0 0 0 0 0 0 0 0 c 0 272 302 192 31 20 10 714 7 12 11 173 627 469 105 163 98 0 0 0 0 0 0 0 0 0 g 0 98 164 105 469 627 173 11 12 7 713 10 20 31 192 302 272 0 0 0 0 0 0 0 0 0 t 0 278 139 326 69 32 15 7 31 695 14 547 66 176 121 141 97 0 0 0 0 0 0 0 0 0
positions_7nt_m4_rc_shift11 (positions_7nt_m4_rc)				; oligos_6nt_mkv3_m1 versus positions_7nt_m4_rc; m=10/17; ncol2=15; w=0; offset=9; strand=R; shift=11; score=0.531997; -----------yccAGACATGCCyrg ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 74 111 94 429 55 522 8 564 25 10 8 20 51 198 118 c 0 0 0 0 0 0 0 0 0 0 0 296 280 372 30 37 7 593 14 7 12 507 553 255 82 146 g 0 0 0 0 0 0 0 0 0 0 0 55 84 64 112 507 79 6 14 13 587 7 10 22 237 265 t 0 0 0 0 0 0 0 0 0 0 0 191 141 86 45 17 8 9 24 571 7 94 33 288 99 87
positions_6nt_m5_shift2 (positions_6nt_m5)				; oligos_6nt_mkv3_m1 versus positions_6nt_m5; m=11/17; ncol2=15; w=0; offset=0; strand=D; shift=2; score=0.523672; --cyrGGCATGTCyagr--------- ; cor=; Ncor= a 0 0 91 115 289 25 110 3 676 29 6 15 22 54 305 134 257 0 0 0 0 0 0 0 0 0 c 0 0 329 261 37 10 9 720 18 14 8 129 613 441 126 154 76 0 0 0 0 0 0 0 0 0 g 0 0 172 87 340 685 598 8 17 14 714 13 36 35 172 316 309 0 0 0 0 0 0 0 0 0 t 0 0 142 271 68 14 17 3 23 677 6 577 63 204 131 130 92 0 0 0 0 0 0 0 0 0
oligos_6nt_mkv3_m3_shift2 (oligos_6nt_mkv3_m3)				; oligos_6nt_mkv3_m1 versus oligos_6nt_mkv3_m3; m=12/17; ncol2=14; w=0; offset=0; strand=D; shift=2; score=0.514997; --cyrGACATGTCyrg---------- ; cor=; Ncor= a 0 0 144 170 237 64 626 9 750 38 5 14 26 105 243 175 0 0 0 0 0 0 0 0 0 0 c 0 0 323 259 42 25 8 791 8 19 10 167 700 431 143 172 0 0 0 0 0 0 0 0 0 0 g 0 0 173 143 431 700 167 10 19 8 790 8 25 42 260 323 0 0 0 0 0 0 0 0 0 0 t 0 0 175 243 105 26 14 5 38 750 10 626 64 237 169 145 0 0 0 0 0 0 0 0 0 0
positions_7nt_m3_shift11 (positions_7nt_m3)				; oligos_6nt_mkv3_m1 versus positions_7nt_m3; m=13/17; ncol2=16; w=0; offset=9; strand=D; shift=11; score=0.506796; -----------yyCAGACATGTCTGr ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 35 58 37 231 15 234 7 289 15 2 6 11 22 38 82 c 0 0 0 0 0 0 0 0 0 0 0 120 124 221 11 7 5 306 8 4 1 71 283 52 20 52 g 0 0 0 0 0 0 0 0 0 0 0 37 52 20 52 283 71 1 4 8 306 5 7 11 221 124 t 0 0 0 0 0 0 0 0 0 0 0 124 82 38 22 11 6 2 15 289 7 234 15 231 37 58
oligos_7nt_mkv4_m5_shift3 (oligos_7nt_mkv4_m5)				; oligos_6nt_mkv3_m1 versus oligos_7nt_mkv4_m5; m=14/17; ncol2=12; w=0; offset=1; strand=D; shift=3; score=0.453392; ---srGACwTGCCyr----------- ; cor=; Ncor= a 0 0 0 117 200 23 523 5 200 15 5 5 15 89 208 0 0 0 0 0 0 0 0 0 0 0 c 0 0 0 189 43 11 12 577 26 10 11 528 549 272 84 0 0 0 0 0 0 0 0 0 0 0 g 0 0 0 178 229 555 45 14 16 12 573 14 14 34 194 0 0 0 0 0 0 0 0 0 0 0 t 0 0 0 113 125 8 17 1 355 560 8 50 19 202 111 0 0 0 0 0 0 0 0 0 0 0
oligos_7nt_mkv4_m2_shift9 (oligos_7nt_mkv4_m2)				; oligos_6nt_mkv3_m1 versus oligos_7nt_mkv4_m2; m=15/17; ncol2=12; w=0; offset=7; strand=D; shift=9; score=0.424649; ---------tgCCCAGACAtg----- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 115 78 22 24 13 580 21 494 21 602 145 125 0 0 0 0 0 c 0 0 0 0 0 0 0 0 0 108 128 556 594 620 9 21 32 586 17 125 80 0 0 0 0 0 g 0 0 0 0 0 0 0 0 0 99 362 23 6 1 19 595 106 30 7 127 366 0 0 0 0 0 t 0 0 0 0 0 0 0 0 0 327 81 48 25 15 41 12 17 12 23 252 78 0 0 0 0 0
oligos_7nt_mkv4_m3_shift13 (oligos_7nt_mkv4_m3)				; oligos_6nt_mkv3_m1 versus oligos_7nt_mkv4_m3; m=16/17; ncol2=12; w=0; offset=11; strand=D; shift=13; score=0.419172; -------------yrGACAAGTCyv- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 0 0 97 172 26 353 7 433 316 4 8 10 97 119 0 c 0 0 0 0 0 0 0 0 0 0 0 0 0 148 38 19 14 429 6 22 1 40 415 182 126 0 g 0 0 0 0 0 0 0 0 0 0 0 0 0 75 177 389 79 11 9 8 442 12 7 27 132 0 t 0 0 0 0 0 0 0 0 0 0 0 0 0 131 64 17 5 4 3 105 4 391 19 145 74 0
oligos_6nt_mkv3_m2_shift13 (oligos_6nt_mkv3_m2)				; oligos_6nt_mkv3_m1 versus oligos_6nt_mkv3_m2; m=17/17; ncol2=12; w=0; offset=11; strand=D; shift=13; score=0.402779; -------------hrgACAAGTCys- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 0 0 146 198 81 397 7 556 404 5 11 18 140 141 0 c 0 0 0 0 0 0 0 0 0 0 0 0 0 168 70 59 44 557 11 24 7 16 535 202 157 0 g 0 0 0 0 0 0 0 0 0 0 0 0 0 108 209 350 116 12 9 15 560 6 6 54 172 0 t 0 0 0 0 0 0 0 0 0 0 0 0 0 159 104 91 24 5 5 138 9 548 22 185 111 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
positions_7nt_m3_shift9 (positions_7nt_m3)				; positions_7nt_m3; m=0 (reference); ncol1=16; shift=9; ncol=25; ---------yyCAGACATGTCTGrr ; Alignment reference a 0 0 0 0 0 0 0 0 0 35 58 37 231 15 234 7 289 15 2 6 11 22 38 82 124 c 0 0 0 0 0 0 0 0 0 120 124 221 11 7 5 306 8 4 1 71 283 52 20 52 37 g 0 0 0 0 0 0 0 0 0 37 52 20 52 283 71 1 4 8 306 5 7 11 221 124 120 t 0 0 0 0 0 0 0 0 0 124 82 38 22 11 6 2 15 289 7 234 15 231 37 58 35
positions_7nt_m3_shift9 (positions_7nt_m3)				; positions_7nt_m3 versus positions_7nt_m3; m=1/16; ncol2=16; w=0; offset=0; strand=D; shift=9; score= 1; ---------yyCAGACATGTCTGrr ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 35 58 37 231 15 234 7 289 15 2 6 11 22 38 82 124 c 0 0 0 0 0 0 0 0 0 120 124 221 11 7 5 306 8 4 1 71 283 52 20 52 37 g 0 0 0 0 0 0 0 0 0 37 52 20 52 283 71 1 4 8 306 5 7 11 221 124 120 t 0 0 0 0 0 0 0 0 0 124 82 38 22 11 6 2 15 289 7 234 15 231 37 58 35
positions_6nt_m4_rc_shift9 (positions_6nt_m4_rc)				; positions_7nt_m3 versus positions_6nt_m4_rc; m=2/16; ncol2=16; w=0; offset=0; strand=R; shift=9; score=0.856266; ---------ycygGACATGTCcrgr ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 97 141 121 176 66 547 14 695 31 7 15 32 69 326 139 278 c 0 0 0 0 0 0 0 0 0 272 302 192 31 20 10 713 7 12 11 173 627 469 105 164 98 g 0 0 0 0 0 0 0 0 0 98 163 105 469 627 173 11 12 7 714 10 20 31 192 302 272 t 0 0 0 0 0 0 0 0 0 278 139 327 69 32 15 7 31 695 13 547 66 176 122 140 97
positions_7nt_m4_shift10 (positions_7nt_m4)				; positions_7nt_m3 versus positions_7nt_m4; m=3/16; ncol2=15; w=0; offset=1; strand=D; shift=10; score=0.847367; ----------cyrGGCATGTCTggr ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 87 99 288 33 94 7 571 24 9 8 17 45 86 141 191 c 0 0 0 0 0 0 0 0 0 0 265 237 22 10 7 587 13 14 6 79 507 112 64 84 55 g 0 0 0 0 0 0 0 0 0 0 146 82 255 553 507 12 7 14 593 7 37 30 372 280 296 t 0 0 0 0 0 0 0 0 0 0 118 198 51 20 8 10 25 564 8 522 55 429 94 111 74
oligos_6nt_mkv3_m3_rc_shift10 (oligos_6nt_mkv3_m3_rc)				; positions_7nt_m3 versus oligos_6nt_mkv3_m3_rc; m=4/16; ncol2=14; w=0; offset=1; strand=R; shift=10; score=0.786994; ----------cyrGACATGTCyrg- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 145 169 237 64 626 10 750 38 5 14 26 105 243 175 0 c 0 0 0 0 0 0 0 0 0 0 323 260 42 25 8 790 8 19 10 167 700 431 143 173 0 g 0 0 0 0 0 0 0 0 0 0 172 143 431 700 167 10 19 8 791 8 25 42 259 323 0 t 0 0 0 0 0 0 0 0 0 0 175 243 105 26 14 5 38 750 9 626 64 237 170 144 0
positions_6nt_m5_shift10 (positions_6nt_m5)				; positions_7nt_m3 versus positions_6nt_m5; m=5/16; ncol2=15; w=0; offset=1; strand=D; shift=10; score=0.778644; ----------cyrGGCATGTCyagr ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 91 115 289 25 110 3 676 29 6 15 22 54 305 134 257 c 0 0 0 0 0 0 0 0 0 0 329 261 37 10 9 720 18 14 8 129 613 441 126 154 76 g 0 0 0 0 0 0 0 0 0 0 172 87 340 685 598 8 17 14 714 13 36 35 172 316 309 t 0 0 0 0 0 0 0 0 0 0 142 271 68 14 17 3 23 677 6 577 63 204 131 130 92
positions_7nt_m1_rc_shift8 (positions_7nt_m1_rc)				; positions_7nt_m3 versus positions_7nt_m1_rc; m=6/16; ncol2=17; w=-1; offset=-1; strand=R; shift=8; score=0.755292; --------gyctGGGCATGTCtggr ; cor=; Ncor= a 0 0 0 0 0 0 0 0 75 80 73 81 90 33 100 5 650 54 7 9 33 82 109 133 213 c 0 0 0 0 0 0 0 0 117 231 401 133 13 18 5 695 15 14 13 115 537 142 112 151 80 g 0 0 0 0 0 0 0 0 365 99 143 53 584 620 592 5 11 35 686 12 70 41 386 303 310 t 0 0 0 0 0 0 0 0 157 304 97 447 27 43 17 9 38 611 8 578 74 449 107 127 111
positions_6nt_m1_rc_shift8 (positions_6nt_m1_rc)				; positions_7nt_m3 versus positions_6nt_m1_rc; m=7/16; ncol2=17; w=-1; offset=-1; strand=R; shift=8; score=0.727513; --------gyctGGGCATGTCyrgr ; cor=; Ncor= a 0 0 0 0 0 0 0 0 83 77 66 91 124 36 108 4 730 64 5 13 32 91 283 141 255 c 0 0 0 0 0 0 0 0 135 297 475 193 21 15 10 778 19 14 17 139 634 430 144 181 91 g 0 0 0 0 0 0 0 0 417 111 153 67 608 726 658 6 14 19 769 21 48 43 218 337 323 t 0 0 0 0 0 0 0 0 160 310 101 444 42 18 19 7 32 698 4 622 81 231 150 136 126
positions_6nt_m3_rc_shift8 (positions_6nt_m3_rc)				; positions_7nt_m3 versus positions_6nt_m3_rc; m=8/16; ncol2=18; w=-1; offset=-1; strand=R; shift=8; score= 0.72; --------gyctGGGCATGTCyggr ; cor=; Ncor= a 0 0 0 0 0 0 0 0 95 97 71 111 137 34 117 5 779 69 9 12 28 103 190 146 265 c 0 0 0 0 0 0 0 0 159 312 504 196 27 23 10 847 23 19 14 157 714 270 149 160 91 g 0 0 0 0 0 0 0 0 430 117 175 82 662 769 728 8 17 36 837 19 56 54 399 435 394 t 0 0 0 0 0 0 0 0 186 344 120 481 44 44 15 10 51 746 10 682 72 443 132 129 120
positions_7nt_m2_rc_shift10 (positions_7nt_m2_rc)				; positions_7nt_m3 versus positions_7nt_m2_rc; m=9/16; ncol2=16; w=0; offset=1; strand=R; shift=10; score=0.66078; ----------cyrGACATGCCCagr ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 140 169 232 107 656 4 704 40 10 12 29 38 497 106 315 c 0 0 0 0 0 0 0 0 0 0 333 240 44 67 19 788 33 18 6 699 740 668 70 166 110 g 0 0 0 0 0 0 0 0 0 0 198 182 452 612 135 19 17 20 799 12 23 18 169 475 302 t 0 0 0 0 0 0 0 0 0 0 151 231 94 36 12 11 68 744 7 99 30 98 86 75 95
oligos_7nt_mkv4_m3_rc_shift11 (oligos_7nt_mkv4_m3_rc)				; positions_7nt_m3 versus oligos_7nt_mkv4_m3_rc; m=10/16; ncol2=12; w=0; offset=2; strand=R; shift=11; score=0.619775; -----------brGACTTGTCyr-- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 74 145 19 391 4 105 3 4 5 17 64 131 0 0 c 0 0 0 0 0 0 0 0 0 0 0 132 27 7 12 442 8 9 11 79 389 177 75 0 0 g 0 0 0 0 0 0 0 0 0 0 0 126 182 415 40 1 22 6 429 14 19 38 148 0 0 t 0 0 0 0 0 0 0 0 0 0 0 119 97 10 8 4 316 433 7 353 26 172 97 0 0
oligos_6nt_mkv3_m2_rc_shift11 (oligos_6nt_mkv3_m2_rc)				; positions_7nt_m3 versus oligos_6nt_mkv3_m2_rc; m=11/16; ncol2=12; w=0; offset=2; strand=R; shift=11; score=0.60234; -----------srGACTTGTcyd-- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 111 185 22 548 9 138 5 5 24 91 104 159 0 0 c 0 0 0 0 0 0 0 0 0 0 0 172 54 6 6 560 15 9 12 116 350 209 108 0 0 g 0 0 0 0 0 0 0 0 0 0 0 157 202 535 16 7 24 11 557 44 59 70 168 0 0 t 0 0 0 0 0 0 0 0 0 0 0 141 140 18 11 5 404 556 7 397 81 198 146 0 0
positions_6nt_m2_rc_shift8 (positions_6nt_m2_rc)				; positions_7nt_m3 versus positions_6nt_m2_rc; m=12/16; ncol2=15; w=-1; offset=-1; strand=R; shift=8; score=0.601262; --------gyctGGGCATGTyyg-- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 88 98 79 98 123 21 93 15 773 55 9 13 71 130 207 0 0 c 0 0 0 0 0 0 0 0 123 296 552 180 12 17 7 809 23 21 18 75 368 310 197 0 0 g 0 0 0 0 0 0 0 0 454 136 127 68 671 763 725 6 13 36 812 22 111 121 255 0 0 t 0 0 0 0 0 0 0 0 181 316 88 500 40 45 21 16 37 734 7 736 296 285 187 0 0
oligos_7nt_mkv4_m5_shift11 (oligos_7nt_mkv4_m5)				; positions_7nt_m3 versus oligos_7nt_mkv4_m5; m=13/16; ncol2=12; w=0; offset=2; strand=D; shift=11; score=0.573481; -----------srGACwTGCCyr-- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 117 200 23 523 5 200 15 5 5 15 89 208 0 0 c 0 0 0 0 0 0 0 0 0 0 0 189 43 11 12 577 26 10 11 528 549 272 84 0 0 g 0 0 0 0 0 0 0 0 0 0 0 178 229 555 45 14 16 12 573 14 14 34 194 0 0 t 0 0 0 0 0 0 0 0 0 0 0 113 125 8 17 1 355 560 8 50 19 202 111 0 0
oligos_7nt_mkv4_m1_shift10 (oligos_7nt_mkv4_m1)				; positions_7nt_m3 versus oligos_7nt_mkv4_m1; m=14/16; ncol2=19; w=0; offset=1; strand=D; shift=10; score=0.528804; ----------skgGACATGCCCAGr ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 106 123 130 97 429 7 483 42 6 7 21 18 416 35 171 c 0 0 0 0 0 0 0 0 0 0 196 138 31 41 16 557 24 16 4 466 531 500 17 31 34 g 0 0 0 0 0 0 0 0 0 0 185 157 356 416 126 15 20 23 572 6 8 11 116 496 361 t 0 0 0 0 0 0 0 0 0 0 98 167 68 31 14 6 58 504 3 106 25 56 36 23 19
oligos_6nt_mkv3_m1_shift0 (oligos_6nt_mkv3_m1)				; positions_7nt_m3 versus oligos_6nt_mkv3_m1; m=15/16; ncol2=24; w=-9; offset=-9; strand=D; shift=0; score=0.506796; skrGrCATGyCCrGrCATGyCyms- ; cor=; Ncor= a 110 103 155 91 354 5 435 53 5 15 25 27 331 33 196 3 497 106 20 26 44 66 171 123 0 c 149 139 33 22 15 542 20 8 2 387 508 390 16 7 6 565 22 17 11 196 420 315 154 180 0 g 202 163 304 416 178 9 17 22 563 4 5 13 192 513 358 3 10 28 535 22 25 38 136 156 0 t 112 168 81 44 26 17 101 490 3 167 35 143 34 20 13 2 44 422 7 329 84 154 112 114 0
oligos_7nt_mkv4_m2_shift7 (oligos_7nt_mkv4_m2)				; positions_7nt_m3 versus oligos_7nt_mkv4_m2; m=16/16; ncol2=12; w=-2; offset=-2; strand=D; shift=7; score=0.464237; -------tgCCCAGACAtg------ ; cor=; Ncor= a 0 0 0 0 0 0 0 115 78 22 24 13 580 21 494 21 602 145 125 0 0 0 0 0 0 c 0 0 0 0 0 0 0 108 128 556 594 620 9 21 32 586 17 125 80 0 0 0 0 0 0 g 0 0 0 0 0 0 0 99 362 23 6 1 19 595 106 30 7 127 366 0 0 0 0 0 0 t 0 0 0 0 0 0 0 327 81 48 25 15 41 12 17 12 23 252 78 0 0 0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_mkv3_m3_shift2 (oligos_6nt_mkv3_m3)				; oligos_6nt_mkv3_m3; m=0 (reference); ncol1=14; shift=2; ncol=16; --cyrGACATGTCyrg ; Alignment reference a 0 0 144 170 237 64 626 9 750 38 5 14 26 105 243 175 c 0 0 323 259 42 25 8 791 8 19 10 167 700 431 143 172 g 0 0 173 143 431 700 167 10 19 8 790 8 25 42 260 323 t 0 0 175 243 105 26 14 5 38 750 10 626 64 237 169 145
oligos_6nt_mkv3_m3_shift2 (oligos_6nt_mkv3_m3)				; oligos_6nt_mkv3_m3 versus oligos_6nt_mkv3_m3; m=1/17; ncol2=14; w=0; offset=0; strand=D; shift=2; score= 1; --cyrGACATGTCyrg ; cor=; Ncor= a 0 0 144 170 237 64 626 9 750 38 5 14 26 105 243 175 c 0 0 323 259 42 25 8 791 8 19 10 167 700 431 143 172 g 0 0 173 143 431 700 167 10 19 8 790 8 25 42 260 323 t 0 0 175 243 105 26 14 5 38 750 10 626 64 237 169 145
positions_6nt_m4_shift1 (positions_6nt_m4)				; oligos_6nt_mkv3_m3 versus positions_6nt_m4; m=2/17; ncol2=16; w=-1; offset=-1; strand=D; shift=1; score=0.86677; -ycygGACATGTCcrg ; cor=; Ncor= a 0 97 140 122 176 66 547 13 695 31 7 15 32 69 327 139 c 0 272 302 192 31 20 10 714 7 12 11 173 627 469 105 163 g 0 98 164 105 469 627 173 11 12 7 713 10 20 31 192 302 t 0 278 139 326 69 32 15 7 31 695 14 547 66 176 121 141
positions_6nt_m5_rc_shift1 (positions_6nt_m5_rc)				; oligos_6nt_mkv3_m3 versus positions_6nt_m5_rc; m=3/17; ncol2=15; w=-1; offset=-1; strand=R; shift=1; score=0.854151; -yctrGACATGCCyrg ; cor=; Ncor= a 0 92 130 131 204 63 577 6 677 23 3 17 14 68 271 142 c 0 309 316 172 35 36 13 714 14 17 8 598 685 340 87 172 g 0 76 154 126 441 613 129 8 14 18 720 9 10 37 261 329 t 0 257 134 305 54 22 15 6 29 676 3 110 25 289 115 91
positions_7nt_m4_shift2 (positions_7nt_m4)				; oligos_6nt_mkv3_m3 versus positions_7nt_m4; m=4/17; ncol2=15; w=0; offset=0; strand=D; shift=2; score=0.816769; --cyrGGCATGTCTgg ; cor=; Ncor= a 0 0 87 99 288 33 94 7 571 24 9 8 17 45 86 141 c 0 0 265 237 22 10 7 587 13 14 6 79 507 112 64 84 g 0 0 146 82 255 553 507 12 7 14 593 7 37 30 372 280 t 0 0 118 198 51 20 8 10 25 564 8 522 55 429 94 111
positions_7nt_m3_shift1 (positions_7nt_m3)				; oligos_6nt_mkv3_m3 versus positions_7nt_m3; m=5/17; ncol2=16; w=-1; offset=-1; strand=D; shift=1; score=0.786994; -yyCAGACATGTCTGr ; cor=; Ncor= a 0 35 58 37 231 15 234 7 289 15 2 6 11 22 38 82 c 0 120 124 221 11 7 5 306 8 4 1 71 283 52 20 52 g 0 37 52 20 52 283 71 1 4 8 306 5 7 11 221 124 t 0 124 82 38 22 11 6 2 15 289 7 234 15 231 37 58
positions_7nt_m2_shift0 (positions_7nt_m2)				; oligos_6nt_mkv3_m3 versus positions_7nt_m2; m=6/17; ncol2=16; w=-2; offset=-2; strand=D; shift=0; score=0.772536; gyctGGGCATGTCyrg ; cor=; Ncor= a 87 95 75 86 98 30 99 7 744 68 11 12 36 94 231 151 c 149 302 475 169 18 23 12 799 20 17 19 135 612 452 182 198 g 419 110 166 70 668 740 699 6 18 33 788 19 67 44 240 333 t 167 315 106 497 38 29 12 10 40 704 4 656 107 232 169 140
oligos_7nt_mkv4_m3_rc_shift3 (oligos_7nt_mkv4_m3_rc)				; oligos_6nt_mkv3_m3 versus oligos_7nt_mkv4_m3_rc; m=7/17; ncol2=12; w=0; offset=1; strand=R; shift=3; score=0.763174; ---brGACTTGTCyr- ; cor=; Ncor= a 0 0 0 74 145 19 391 4 105 3 4 5 17 64 131 0 c 0 0 0 132 27 7 12 442 8 9 11 79 389 177 75 0 g 0 0 0 126 182 415 40 1 22 6 429 14 19 38 148 0 t 0 0 0 119 97 10 8 4 316 433 7 353 26 172 97 0
oligos_6nt_mkv3_m2_shift3 (oligos_6nt_mkv3_m2)				; oligos_6nt_mkv3_m3 versus oligos_6nt_mkv3_m2; m=8/17; ncol2=12; w=0; offset=1; strand=D; shift=3; score=0.744156; ---hrgACAAGTCys- ; cor=; Ncor= a 0 0 0 146 198 81 397 7 556 404 5 11 18 140 141 0 c 0 0 0 168 70 59 44 557 11 24 7 16 535 202 157 0 g 0 0 0 108 209 350 116 12 9 15 560 6 6 54 172 0 t 0 0 0 159 104 91 24 5 5 138 9 548 22 185 111 0
positions_6nt_m1_rc_shift0 (positions_6nt_m1_rc)				; oligos_6nt_mkv3_m3 versus positions_6nt_m1_rc; m=9/17; ncol2=17; w=-2; offset=-2; strand=R; shift=0; score=0.738389; gyctGGGCATGTCyrg ; cor=; Ncor= a 83 77 66 91 124 36 108 4 730 64 5 13 32 91 283 141 c 135 297 475 193 21 15 10 778 19 14 17 139 634 430 144 181 g 417 111 153 67 608 726 658 6 14 19 769 21 48 43 218 337 t 160 310 101 444 42 18 19 7 32 698 4 622 81 231 150 136
positions_7nt_m1_rc_shift0 (positions_7nt_m1_rc)				; oligos_6nt_mkv3_m3 versus positions_7nt_m1_rc; m=10/17; ncol2=17; w=-2; offset=-2; strand=R; shift=0; score=0.708195; gyctGGGCATGTCtgg ; cor=; Ncor= a 75 80 73 81 90 33 100 5 650 54 7 9 33 82 109 133 c 117 231 401 133 13 18 5 695 15 14 13 115 537 142 112 151 g 365 99 143 53 584 620 592 5 11 35 686 12 70 41 386 303 t 157 304 97 447 27 43 17 9 38 611 8 578 74 449 107 127
oligos_7nt_mkv4_m5_shift3 (oligos_7nt_mkv4_m5)				; oligos_6nt_mkv3_m3 versus oligos_7nt_mkv4_m5; m=11/17; ncol2=12; w=0; offset=1; strand=D; shift=3; score=0.702019; ---srGACwTGCCyr- ; cor=; Ncor= a 0 0 0 117 200 23 523 5 200 15 5 5 15 89 208 0 c 0 0 0 189 43 11 12 577 26 10 11 528 549 272 84 0 g 0 0 0 178 229 555 45 14 16 12 573 14 14 34 194 0 t 0 0 0 113 125 8 17 1 355 560 8 50 19 202 111 0
positions_6nt_m3_rc_shift0 (positions_6nt_m3_rc)				; oligos_6nt_mkv3_m3 versus positions_6nt_m3_rc; m=12/17; ncol2=18; w=-2; offset=-2; strand=R; shift=0; score=0.686588; gyctGGGCATGTCygg ; cor=; Ncor= a 95 97 71 111 137 34 117 5 779 69 9 12 28 103 190 146 c 159 312 504 196 27 23 10 847 23 19 14 157 714 270 149 160 g 430 117 175 82 662 769 728 8 17 36 837 19 56 54 399 435 t 186 344 120 481 44 44 15 10 51 746 10 682 72 443 132 129
positions_6nt_m2_shift3 (positions_6nt_m2)				; oligos_6nt_mkv3_m3 versus positions_6nt_m2; m=13/17; ncol2=15; w=0; offset=1; strand=D; shift=3; score=0.685257; ---crrACATGCCCag ; cor=; Ncor= a 0 0 0 187 285 296 736 7 734 37 16 21 45 40 500 88 c 0 0 0 255 121 111 22 812 36 13 6 725 763 671 68 127 g 0 0 0 197 310 368 75 18 21 23 809 7 17 12 180 552 t 0 0 0 207 130 71 13 9 55 773 15 93 21 123 98 79
positions_7nt_m5_shift0 (positions_7nt_m5)				; oligos_6nt_mkv3_m3 versus positions_7nt_m5; m=14/17; ncol2=18; w=-2; offset=-2; strand=D; shift=0; score=0.645753; gyctGGGCATGCCCag ; cor=; Ncor= a 62 46 57 49 61 23 106 4 449 20 2 6 30 16 303 44 c 94 212 308 114 14 15 22 489 22 12 8 370 436 412 38 94 g 264 66 94 38 412 435 369 8 12 22 489 22 15 14 114 308 t 83 179 44 302 16 30 6 2 20 449 4 105 22 61 48 57
oligos_7nt_mkv4_m1_shift2 (oligos_7nt_mkv4_m1)				; oligos_6nt_mkv3_m3 versus oligos_7nt_mkv4_m1; m=15/17; ncol2=19; w=0; offset=0; strand=D; shift=2; score=0.632778; --skgGACATGCCCAG ; cor=; Ncor= a 0 0 106 123 130 97 429 7 483 42 6 7 21 18 416 35 c 0 0 196 138 31 41 16 557 24 16 4 466 531 500 17 31 g 0 0 185 157 356 416 126 15 20 23 572 6 8 11 116 496 t 0 0 98 167 68 31 14 6 58 504 3 106 25 56 36 23
oligos_7nt_mkv4_m4_rc_shift2 (oligos_7nt_mkv4_m4_rc)				; oligos_6nt_mkv3_m3 versus oligos_7nt_mkv4_m4_rc; m=16/17; ncol2=11; w=0; offset=0; strand=R; shift=2; score=0.550571; --syGGGCtTGyc--- ; cor=; Ncor= a 0 0 59 83 7 5 17 10 117 7 8 51 83 0 0 0 c 0 0 222 144 5 16 10 451 23 17 17 127 211 0 0 0 g 0 0 137 102 461 450 443 11 35 33 447 100 91 0 0 0 t 0 0 59 148 4 6 7 5 302 420 5 199 92 0 0 0
oligos_6nt_mkv3_m1_shift2 (oligos_6nt_mkv3_m1)				; oligos_6nt_mkv3_m3 versus oligos_6nt_mkv3_m1; m=17/17; ncol2=24; w=0; offset=0; strand=D; shift=2; score=0.514997; --skrGrCATGyCCrG ; cor=; Ncor= a 0 0 110 103 155 91 354 5 435 53 5 15 25 27 331 33 c 0 0 149 139 33 22 15 542 20 8 2 387 508 390 16 7 g 0 0 202 163 304 416 178 9 17 22 563 4 5 13 192 513 t 0 0 112 168 81 44 26 17 101 490 3 167 35 143 34 20

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
positions_6nt_m3_shift1 (positions_6nt_m3)				; positions_6nt_m3; m=0 (reference); ncol1=18; shift=1; ncol=19; -gyccrGACATGCCCagrc ; Alignment reference a 0 92 120 129 132 443 72 682 10 746 51 10 15 44 44 481 120 344 186 c 0 187 394 435 399 54 56 19 837 36 17 8 728 769 662 82 175 117 430 g 0 472 91 160 149 270 714 157 14 19 23 847 10 23 27 196 504 312 159 t 0 119 265 146 190 103 28 12 9 69 779 5 117 34 137 111 71 97 95
positions_6nt_m3_shift1 (positions_6nt_m3)				; positions_6nt_m3 versus positions_6nt_m3; m=1/18; ncol2=18; w=0; offset=0; strand=D; shift=1; score= 1; -gyccrGACATGCCCagrc ; cor=; Ncor= a 0 92 120 129 132 443 72 682 10 746 51 10 15 44 44 481 120 344 186 c 0 187 394 435 399 54 56 19 837 36 17 8 728 769 662 82 175 117 430 g 0 472 91 160 149 270 714 157 14 19 23 847 10 23 27 196 504 312 159 t 0 119 265 146 190 103 28 12 9 69 779 5 117 34 137 111 71 97 95
positions_7nt_m1_shift2 (positions_7nt_m1)				; positions_6nt_m3 versus positions_7nt_m1; m=2/18; ncol2=17; w=0; offset=1; strand=D; shift=2; score=0.938416; --yccaGACATGCCCagrc ; cor=; Ncor= a 0 0 111 127 107 449 74 578 8 611 38 9 17 43 27 447 97 304 157 c 0 0 310 303 386 41 70 12 686 35 11 5 592 620 584 53 143 99 365 g 0 0 80 151 112 142 537 115 13 14 15 695 5 18 13 133 401 231 117 t 0 0 213 133 109 82 33 9 7 54 650 5 100 33 90 81 73 80 75
positions_6nt_m1_shift2 (positions_6nt_m1)				; positions_6nt_m3 versus positions_6nt_m1; m=3/18; ncol2=17; w=0; offset=1; strand=D; shift=2; score=0.929305; --ycyrGACATGCCCagrc ; cor=; Ncor= a 0 0 126 136 150 231 81 622 4 698 32 7 19 18 42 444 101 310 160 c 0 0 323 337 218 43 48 21 769 19 14 6 658 726 608 67 153 111 417 g 0 0 91 181 144 430 634 139 17 14 19 778 10 15 21 193 475 297 135 t 0 0 255 141 283 91 32 13 5 64 730 4 108 36 124 91 66 77 83
positions_7nt_m5_shift1 (positions_7nt_m5)				; positions_6nt_m3 versus positions_7nt_m5; m=4/18; ncol2=18; w=0; offset=0; strand=D; shift=1; score=0.885966; -gyctGGGCATGCCCagrc ; cor=; Ncor= a 0 62 46 57 49 61 23 106 4 449 20 2 6 30 16 303 44 179 83 c 0 94 212 308 114 14 15 22 489 22 12 8 370 436 412 38 94 66 265 g 0 264 66 94 38 412 435 369 8 12 22 489 22 15 14 114 308 212 93 t 0 83 179 44 302 16 30 6 2 20 449 4 105 22 61 48 57 46 62
positions_7nt_m2_rc_shift3 (positions_7nt_m2_rc)				; positions_6nt_m3 versus positions_7nt_m2_rc; m=5/18; ncol2=16; w=0; offset=2; strand=R; shift=3; score=0.874031; ---cyrGACATGCCCagrc ; cor=; Ncor= a 0 0 0 140 169 232 107 656 4 704 40 10 12 29 38 497 106 315 167 c 0 0 0 333 240 44 67 19 788 33 18 6 699 740 668 70 166 110 419 g 0 0 0 198 182 452 612 135 19 17 20 799 12 23 18 169 475 302 149 t 0 0 0 151 231 94 36 12 11 68 744 7 99 30 98 86 75 95 87
positions_6nt_m2_shift4 (positions_6nt_m2)				; positions_6nt_m3 versus positions_6nt_m2; m=6/18; ncol2=15; w=0; offset=3; strand=D; shift=4; score=0.806154; ----crrACATGCCCagrc ; cor=; Ncor= a 0 0 0 0 187 285 296 736 7 734 37 16 21 45 40 500 88 316 181 c 0 0 0 0 255 121 111 22 812 36 13 6 725 763 671 68 127 136 454 g 0 0 0 0 197 310 368 75 18 21 23 809 7 17 12 180 552 296 123 t 0 0 0 0 207 130 71 13 9 55 773 15 93 21 123 98 79 98 88
positions_7nt_m4_rc_shift2 (positions_7nt_m4_rc)				; positions_6nt_m3 versus positions_7nt_m4_rc; m=7/18; ncol2=15; w=0; offset=1; strand=R; shift=2; score=0.798576; --yccAGACATGCCyrg-- ; cor=; Ncor= a 0 0 74 111 94 429 55 522 8 564 25 10 8 20 51 198 118 0 0 c 0 0 296 280 372 30 37 7 593 14 7 12 507 553 255 82 146 0 0 g 0 0 55 84 64 112 507 79 6 14 13 587 7 10 22 237 265 0 0 t 0 0 191 141 86 45 17 8 9 24 571 7 94 33 288 99 87 0 0
positions_6nt_m5_rc_shift2 (positions_6nt_m5_rc)				; positions_6nt_m3 versus positions_6nt_m5_rc; m=8/18; ncol2=15; w=0; offset=1; strand=R; shift=2; score=0.795268; --yctrGACATGCCyrg-- ; cor=; Ncor= a 0 0 92 130 131 204 63 577 6 677 23 3 17 14 68 271 142 0 0 c 0 0 309 316 172 35 36 13 714 14 17 8 598 685 340 87 172 0 0 g 0 0 76 154 126 441 613 129 8 14 18 720 9 10 37 261 329 0 0 t 0 0 257 134 305 54 22 15 6 29 676 3 110 25 289 115 91 0 0
positions_6nt_m4_shift2 (positions_6nt_m4)				; positions_6nt_m3 versus positions_6nt_m4; m=9/18; ncol2=16; w=0; offset=1; strand=D; shift=2; score= 0.7915; --ycygGACATGTCcrgr- ; cor=; Ncor= a 0 0 97 140 122 176 66 547 13 695 31 7 15 32 69 327 139 278 0 c 0 0 272 302 192 31 20 10 714 7 12 11 173 627 469 105 163 98 0 g 0 0 98 164 105 469 627 173 11 12 7 713 10 20 31 192 302 272 0 t 0 0 278 139 326 69 32 15 7 31 695 14 547 66 176 121 141 97 0
positions_7nt_m3_shift2 (positions_7nt_m3)				; positions_6nt_m3 versus positions_7nt_m3; m=10/18; ncol2=16; w=0; offset=1; strand=D; shift=2; score= 0.72; --yyCAGACATGTCTGrr- ; cor=; Ncor= a 0 0 35 58 37 231 15 234 7 289 15 2 6 11 22 38 82 124 0 c 0 0 120 124 221 11 7 5 306 8 4 1 71 283 52 20 52 37 0 g 0 0 37 52 20 52 283 71 1 4 8 306 5 7 11 221 124 120 0 t 0 0 124 82 38 22 11 6 2 15 289 7 234 15 231 37 58 35 0
oligos_7nt_mkv4_m1_shift3 (oligos_7nt_mkv4_m1)				; positions_6nt_m3 versus oligos_7nt_mkv4_m1; m=11/18; ncol2=19; w=0; offset=2; strand=D; shift=3; score=0.717939; ---skgGACATGCCCAGrC ; cor=; Ncor= a 0 0 0 106 123 130 97 429 7 483 42 6 7 21 18 416 35 171 49 c 0 0 0 196 138 31 41 16 557 24 16 4 466 531 500 17 31 34 463 g 0 0 0 185 157 356 416 126 15 20 23 572 6 8 11 116 496 361 44 t 0 0 0 98 167 68 31 14 6 58 504 3 106 25 56 36 23 19 29
oligos_6nt_mkv3_m3_rc_shift3 (oligos_6nt_mkv3_m3_rc)				; positions_6nt_m3 versus oligos_6nt_mkv3_m3_rc; m=12/18; ncol2=14; w=0; offset=2; strand=R; shift=3; score=0.686588; ---cyrGACATGTCyrg-- ; cor=; Ncor= a 0 0 0 145 169 237 64 626 10 750 38 5 14 26 105 243 175 0 0 c 0 0 0 323 260 42 25 8 790 8 19 10 167 700 431 143 173 0 0 g 0 0 0 172 143 431 700 167 10 19 8 791 8 25 42 259 323 0 0 t 0 0 0 175 243 105 26 14 5 38 750 9 626 64 237 170 144 0 0
oligos_7nt_mkv4_m5_shift4 (oligos_7nt_mkv4_m5)				; positions_6nt_m3 versus oligos_7nt_mkv4_m5; m=13/18; ncol2=12; w=0; offset=3; strand=D; shift=4; score=0.607141; ----srGACwTGCCyr--- ; cor=; Ncor= a 0 0 0 0 117 200 23 523 5 200 15 5 5 15 89 208 0 0 0 c 0 0 0 0 189 43 11 12 577 26 10 11 528 549 272 84 0 0 0 g 0 0 0 0 178 229 555 45 14 16 12 573 14 14 34 194 0 0 0 t 0 0 0 0 113 125 8 17 1 355 560 8 50 19 202 111 0 0 0
oligos_6nt_mkv3_m1_shift3 (oligos_6nt_mkv3_m1)				; positions_6nt_m3 versus oligos_6nt_mkv3_m1; m=14/18; ncol2=24; w=0; offset=2; strand=D; shift=3; score=0.560034; ---skrGrCATGyCCrGrC ; cor=; Ncor= a 0 0 0 110 103 155 91 354 5 435 53 5 15 25 27 331 33 196 3 c 0 0 0 149 139 33 22 15 542 20 8 2 387 508 390 16 7 6 565 g 0 0 0 202 163 304 416 178 9 17 22 563 4 5 13 192 513 358 3 t 0 0 0 112 168 81 44 26 17 101 490 3 167 35 143 34 20 13 2
oligos_7nt_mkv4_m4_shift6 (oligos_7nt_mkv4_m4)				; positions_6nt_m3 versus oligos_7nt_mkv4_m4; m=15/18; ncol2=11; w=0; offset=5; strand=D; shift=6; score=0.522932; ------grCAaGCCCrs-- ; cor=; Ncor= a 0 0 0 0 0 0 92 199 5 420 302 5 7 6 4 148 59 0 0 c 0 0 0 0 0 0 91 100 447 33 35 11 443 450 461 102 137 0 0 g 0 0 0 0 0 0 211 127 17 17 23 451 10 16 5 144 222 0 0 t 0 0 0 0 0 0 83 51 8 7 117 10 17 5 7 83 59 0 0
oligos_7nt_mkv4_m3_rc_shift4 (oligos_7nt_mkv4_m3_rc)				; positions_6nt_m3 versus oligos_7nt_mkv4_m3_rc; m=16/18; ncol2=12; w=0; offset=3; strand=R; shift=4; score=0.521866; ----brGACTTGTCyr--- ; cor=; Ncor= a 0 0 0 0 74 145 19 391 4 105 3 4 5 17 64 131 0 0 0 c 0 0 0 0 132 27 7 12 442 8 9 11 79 389 177 75 0 0 0 g 0 0 0 0 126 182 415 40 1 22 6 429 14 19 38 148 0 0 0 t 0 0 0 0 119 97 10 8 4 316 433 7 353 26 172 97 0 0 0
oligos_6nt_mkv3_m2_rc_shift4 (oligos_6nt_mkv3_m2_rc)				; positions_6nt_m3 versus oligos_6nt_mkv3_m2_rc; m=17/18; ncol2=12; w=0; offset=3; strand=R; shift=4; score=0.515839; ----srGACTTGTcyd--- ; cor=; Ncor= a 0 0 0 0 111 185 22 548 9 138 5 5 24 91 104 159 0 0 0 c 0 0 0 0 172 54 6 6 560 15 9 12 116 350 209 108 0 0 0 g 0 0 0 0 157 202 535 16 7 24 11 557 44 59 70 168 0 0 0 t 0 0 0 0 141 140 18 11 5 404 556 7 397 81 198 146 0 0 0
oligos_7nt_mkv4_m2_shift0 (oligos_7nt_mkv4_m2)				; positions_6nt_m3 versus oligos_7nt_mkv4_m2; m=18/18; ncol2=12; w=-1; offset=-1; strand=D; shift=0; score=0.470932; tgCCCAGACAtg------- ; cor=; Ncor= a 115 78 22 24 13 580 21 494 21 602 145 125 0 0 0 0 0 0 0 c 108 128 556 594 620 9 21 32 586 17 125 80 0 0 0 0 0 0 0 g 99 362 23 6 1 19 595 106 30 7 127 366 0 0 0 0 0 0 0 t 327 81 48 25 15 41 12 17 12 23 252 78 0 0 0 0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_mkv4_m3_shift11 (oligos_7nt_mkv4_m3)				; oligos_7nt_mkv4_m3; m=0 (reference); ncol1=12; shift=11; ncol=23; -----------yrGACAAGTCyv ; Alignment reference a 0 0 0 0 0 0 0 0 0 0 0 97 172 26 353 7 433 316 4 8 10 97 119 c 0 0 0 0 0 0 0 0 0 0 0 148 38 19 14 429 6 22 1 40 415 182 126 g 0 0 0 0 0 0 0 0 0 0 0 75 177 389 79 11 9 8 442 12 7 27 132 t 0 0 0 0 0 0 0 0 0 0 0 131 64 17 5 4 3 105 4 391 19 145 74
oligos_7nt_mkv4_m3_shift11 (oligos_7nt_mkv4_m3)				; oligos_7nt_mkv4_m3 versus oligos_7nt_mkv4_m3; m=1/16; ncol2=12; w=0; offset=0; strand=D; shift=11; score= 1; -----------yrGACAAGTCyv ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 97 172 26 353 7 433 316 4 8 10 97 119 c 0 0 0 0 0 0 0 0 0 0 0 148 38 19 14 429 6 22 1 40 415 182 126 g 0 0 0 0 0 0 0 0 0 0 0 75 177 389 79 11 9 8 442 12 7 27 132 t 0 0 0 0 0 0 0 0 0 0 0 131 64 17 5 4 3 105 4 391 19 145 74
oligos_6nt_mkv3_m2_shift11 (oligos_6nt_mkv3_m2)				; oligos_7nt_mkv4_m3 versus oligos_6nt_mkv3_m2; m=2/16; ncol2=12; w=0; offset=0; strand=D; shift=11; score=0.985996; -----------hrgACAAGTCys ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 146 198 81 397 7 556 404 5 11 18 140 141 c 0 0 0 0 0 0 0 0 0 0 0 168 70 59 44 557 11 24 7 16 535 202 157 g 0 0 0 0 0 0 0 0 0 0 0 108 209 350 116 12 9 15 560 6 6 54 172 t 0 0 0 0 0 0 0 0 0 0 0 159 104 91 24 5 5 138 9 548 22 185 111
oligos_7nt_mkv4_m5_rc_shift11 (oligos_7nt_mkv4_m5_rc)				; oligos_7nt_mkv4_m3 versus oligos_7nt_mkv4_m5_rc; m=3/16; ncol2=12; w=0; offset=0; strand=R; shift=11; score=0.886954; -----------yrGGCAwGTCys ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 111 202 19 50 8 560 355 1 17 8 125 113 c 0 0 0 0 0 0 0 0 0 0 0 194 34 14 14 573 12 16 14 45 555 229 178 g 0 0 0 0 0 0 0 0 0 0 0 84 272 549 528 11 10 26 577 12 11 43 189 t 0 0 0 0 0 0 0 0 0 0 0 208 89 15 5 5 15 200 5 523 23 200 117
oligos_6nt_mkv3_m3_rc_shift10 (oligos_6nt_mkv3_m3_rc)				; oligos_7nt_mkv4_m3 versus oligos_6nt_mkv3_m3_rc; m=4/16; ncol2=14; w=-1; offset=-1; strand=R; shift=10; score=0.763174; ----------cyrGACATGTCyr ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 145 169 237 64 626 10 750 38 5 14 26 105 243 c 0 0 0 0 0 0 0 0 0 0 323 260 42 25 8 790 8 19 10 167 700 431 143 g 0 0 0 0 0 0 0 0 0 0 172 143 431 700 167 10 19 8 791 8 25 42 259 t 0 0 0 0 0 0 0 0 0 0 175 243 105 26 14 5 38 750 9 626 64 237 170
positions_6nt_m4_rc_shift9 (positions_6nt_m4_rc)				; oligos_7nt_mkv4_m3 versus positions_6nt_m4_rc; m=5/16; ncol2=16; w=-2; offset=-2; strand=R; shift=9; score=0.651321; ---------ycygGACATGTCcr ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 97 141 121 176 66 547 14 695 31 7 15 32 69 326 c 0 0 0 0 0 0 0 0 0 272 302 192 31 20 10 713 7 12 11 173 627 469 105 g 0 0 0 0 0 0 0 0 0 98 163 105 469 627 173 11 12 7 714 10 20 31 192 t 0 0 0 0 0 0 0 0 0 278 139 327 69 32 15 7 31 695 13 547 66 176 122
positions_6nt_m5_shift10 (positions_6nt_m5)				; oligos_7nt_mkv4_m3 versus positions_6nt_m5; m=6/16; ncol2=15; w=-1; offset=-1; strand=D; shift=10; score=0.641732; ----------cyrGGCATGTCya ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 91 115 289 25 110 3 676 29 6 15 22 54 305 c 0 0 0 0 0 0 0 0 0 0 329 261 37 10 9 720 18 14 8 129 613 441 126 g 0 0 0 0 0 0 0 0 0 0 172 87 340 685 598 8 17 14 714 13 36 35 172 t 0 0 0 0 0 0 0 0 0 0 142 271 68 14 17 3 23 677 6 577 63 204 131
positions_7nt_m4_shift10 (positions_7nt_m4)				; oligos_7nt_mkv4_m3 versus positions_7nt_m4; m=7/16; ncol2=15; w=-1; offset=-1; strand=D; shift=10; score=0.625124; ----------cyrGGCATGTCTg ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 87 99 288 33 94 7 571 24 9 8 17 45 86 c 0 0 0 0 0 0 0 0 0 0 265 237 22 10 7 587 13 14 6 79 507 112 64 g 0 0 0 0 0 0 0 0 0 0 146 82 255 553 507 12 7 14 593 7 37 30 372 t 0 0 0 0 0 0 0 0 0 0 118 198 51 20 8 10 25 564 8 522 55 429 94
positions_7nt_m3_shift9 (positions_7nt_m3)				; oligos_7nt_mkv4_m3 versus positions_7nt_m3; m=8/16; ncol2=16; w=-2; offset=-2; strand=D; shift=9; score=0.619775; ---------yyCAGACATGTCTG ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 35 58 37 231 15 234 7 289 15 2 6 11 22 38 c 0 0 0 0 0 0 0 0 0 120 124 221 11 7 5 306 8 4 1 71 283 52 20 g 0 0 0 0 0 0 0 0 0 37 52 20 52 283 71 1 4 8 306 5 7 11 221 t 0 0 0 0 0 0 0 0 0 124 82 38 22 11 6 2 15 289 7 234 15 231 37
positions_6nt_m2_rc_shift8 (positions_6nt_m2_rc)				; oligos_7nt_mkv4_m3 versus positions_6nt_m2_rc; m=9/16; ncol2=15; w=-3; offset=-3; strand=R; shift=8; score=0.587531; --------gyctGGGCATGTyyg ; cor=; Ncor= a 0 0 0 0 0 0 0 0 88 98 79 98 123 21 93 15 773 55 9 13 71 130 207 c 0 0 0 0 0 0 0 0 123 296 552 180 12 17 7 809 23 21 18 75 368 310 197 g 0 0 0 0 0 0 0 0 454 136 127 68 671 763 725 6 13 36 812 22 111 121 255 t 0 0 0 0 0 0 0 0 181 316 88 500 40 45 21 16 37 734 7 736 296 285 187
positions_7nt_m2_shift8 (positions_7nt_m2)				; oligos_7nt_mkv4_m3 versus positions_7nt_m2; m=10/16; ncol2=16; w=-3; offset=-3; strand=D; shift=8; score=0.580165; --------gyctGGGCATGTCyr ; cor=; Ncor= a 0 0 0 0 0 0 0 0 87 95 75 86 98 30 99 7 744 68 11 12 36 94 231 c 0 0 0 0 0 0 0 0 149 302 475 169 18 23 12 799 20 17 19 135 612 452 182 g 0 0 0 0 0 0 0 0 419 110 166 70 668 740 699 6 18 33 788 19 67 44 240 t 0 0 0 0 0 0 0 0 167 315 106 497 38 29 12 10 40 704 4 656 107 232 169
oligos_7nt_mkv4_m4_shift13 (oligos_7nt_mkv4_m4)				; oligos_7nt_mkv4_m3 versus oligos_7nt_mkv4_m4; m=11/16; ncol2=11; w=0; offset=2; strand=D; shift=13; score=0.561598; -------------grCAaGCCCr ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 0 0 92 199 5 420 302 5 7 6 4 148 c 0 0 0 0 0 0 0 0 0 0 0 0 0 91 100 447 33 35 11 443 450 461 102 g 0 0 0 0 0 0 0 0 0 0 0 0 0 211 127 17 17 23 451 10 16 5 144 t 0 0 0 0 0 0 0 0 0 0 0 0 0 83 51 8 7 117 10 17 5 7 83
positions_6nt_m1_rc_shift8 (positions_6nt_m1_rc)				; oligos_7nt_mkv4_m3 versus positions_6nt_m1_rc; m=12/16; ncol2=17; w=-3; offset=-3; strand=R; shift=8; score=0.555901; --------gyctGGGCATGTCyr ; cor=; Ncor= a 0 0 0 0 0 0 0 0 83 77 66 91 124 36 108 4 730 64 5 13 32 91 283 c 0 0 0 0 0 0 0 0 135 297 475 193 21 15 10 778 19 14 17 139 634 430 144 g 0 0 0 0 0 0 0 0 417 111 153 67 608 726 658 6 14 19 769 21 48 43 218 t 0 0 0 0 0 0 0 0 160 310 101 444 42 18 19 7 32 698 4 622 81 231 150
positions_7nt_m1_rc_shift8 (positions_7nt_m1_rc)				; oligos_7nt_mkv4_m3 versus positions_7nt_m1_rc; m=13/16; ncol2=17; w=-3; offset=-3; strand=R; shift=8; score=0.536667; --------gyctGGGCATGTCtg ; cor=; Ncor= a 0 0 0 0 0 0 0 0 75 80 73 81 90 33 100 5 650 54 7 9 33 82 109 c 0 0 0 0 0 0 0 0 117 231 401 133 13 18 5 695 15 14 13 115 537 142 112 g 0 0 0 0 0 0 0 0 365 99 143 53 584 620 592 5 11 35 686 12 70 41 386 t 0 0 0 0 0 0 0 0 157 304 97 447 27 43 17 9 38 611 8 578 74 449 107
positions_6nt_m3_rc_shift8 (positions_6nt_m3_rc)				; oligos_7nt_mkv4_m3 versus positions_6nt_m3_rc; m=14/16; ncol2=18; w=-3; offset=-3; strand=R; shift=8; score=0.521866; --------gyctGGGCATGTCyg ; cor=; Ncor= a 0 0 0 0 0 0 0 0 95 97 71 111 137 34 117 5 779 69 9 12 28 103 190 c 0 0 0 0 0 0 0 0 159 312 504 196 27 23 10 847 23 19 14 157 714 270 149 g 0 0 0 0 0 0 0 0 430 117 175 82 662 769 728 8 17 36 837 19 56 54 399 t 0 0 0 0 0 0 0 0 186 344 120 481 44 44 15 10 51 746 10 682 72 443 132
oligos_7nt_mkv4_m1_rc_shift5 (oligos_7nt_mkv4_m1_rc)				; oligos_7nt_mkv4_m3 versus oligos_7nt_mkv4_m1_rc; m=15/16; ncol2=19; w=-6; offset=-6; strand=R; shift=5; score=0.484815; -----CwtGyCTGGGCATGTCcm ; cor=; Ncor= a 0 0 0 0 0 60 285 67 29 19 23 36 56 25 106 3 504 58 6 14 31 68 167 c 0 0 0 0 0 398 77 39 44 361 496 116 11 8 6 572 23 20 15 126 416 356 157 g 0 0 0 0 0 57 64 82 463 34 31 17 500 531 466 4 16 24 557 16 41 31 138 t 0 0 0 0 0 70 159 397 49 171 35 416 18 21 7 6 42 483 7 429 97 130 123
oligos_6nt_mkv3_m1_shift0 (oligos_6nt_mkv3_m1)				; oligos_7nt_mkv4_m3 versus oligos_6nt_mkv3_m1; m=16/16; ncol2=24; w=-11; offset=-11; strand=D; shift=0; score=0.419172; skrGrCATGyCCrGrCATGyCym ; cor=; Ncor= a 110 103 155 91 354 5 435 53 5 15 25 27 331 33 196 3 497 106 20 26 44 66 171 c 149 139 33 22 15 542 20 8 2 387 508 390 16 7 6 565 22 17 11 196 420 315 154 g 202 163 304 416 178 9 17 22 563 4 5 13 192 513 358 3 10 28 535 22 25 38 136 t 112 168 81 44 26 17 101 490 3 167 35 143 34 20 13 2 44 422 7 329 84 154 112

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
positions_6nt_m5_shift5 (positions_6nt_m5)				; positions_6nt_m5; m=0 (reference); ncol1=15; shift=5; ncol=20; -----cyrGGCATGTCyagr ; Alignment reference a 0 0 0 0 0 91 115 289 25 110 3 676 29 6 15 22 54 305 134 257 c 0 0 0 0 0 329 261 37 10 9 720 18 14 8 129 613 441 126 154 76 g 0 0 0 0 0 172 87 340 685 598 8 17 14 714 13 36 35 172 316 309 t 0 0 0 0 0 142 271 68 14 17 3 23 677 6 577 63 204 131 130 92
positions_6nt_m5_shift5 (positions_6nt_m5)				; positions_6nt_m5 versus positions_6nt_m5; m=1/17; ncol2=15; w=0; offset=0; strand=D; shift=5; score= 1; -----cyrGGCATGTCyagr ; cor=; Ncor= a 0 0 0 0 0 91 115 289 25 110 3 676 29 6 15 22 54 305 134 257 c 0 0 0 0 0 329 261 37 10 9 720 18 14 8 129 613 441 126 154 76 g 0 0 0 0 0 172 87 340 685 598 8 17 14 714 13 36 35 172 316 309 t 0 0 0 0 0 142 271 68 14 17 3 23 677 6 577 63 204 131 130 92
positions_7nt_m4_shift5 (positions_7nt_m4)				; positions_6nt_m5 versus positions_7nt_m4; m=2/17; ncol2=15; w=0; offset=0; strand=D; shift=5; score=0.942295; -----cyrGGCATGTCTggr ; cor=; Ncor= a 0 0 0 0 0 87 99 288 33 94 7 571 24 9 8 17 45 86 141 191 c 0 0 0 0 0 265 237 22 10 7 587 13 14 6 79 507 112 64 84 55 g 0 0 0 0 0 146 82 255 553 507 12 7 14 593 7 37 30 372 280 296 t 0 0 0 0 0 118 198 51 20 8 10 25 564 8 522 55 429 94 111 74
positions_6nt_m4_shift4 (positions_6nt_m4)				; positions_6nt_m5 versus positions_6nt_m4; m=3/17; ncol2=16; w=-1; offset=-1; strand=D; shift=4; score=0.864069; ----ycygGACATGTCcrgr ; cor=; Ncor= a 0 0 0 0 97 140 122 176 66 547 13 695 31 7 15 32 69 327 139 278 c 0 0 0 0 272 302 192 31 20 10 714 7 12 11 173 627 469 105 163 98 g 0 0 0 0 98 164 105 469 627 173 11 12 7 713 10 20 31 192 302 272 t 0 0 0 0 278 139 326 69 32 15 7 31 695 14 547 66 176 121 141 97
positions_6nt_m1_rc_shift3 (positions_6nt_m1_rc)				; positions_6nt_m5 versus positions_6nt_m1_rc; m=4/17; ncol2=17; w=-2; offset=-2; strand=R; shift=3; score=0.861126; ---gyctGGGCATGTCyrgr ; cor=; Ncor= a 0 0 0 83 77 66 91 124 36 108 4 730 64 5 13 32 91 283 141 255 c 0 0 0 135 297 475 193 21 15 10 778 19 14 17 139 634 430 144 181 91 g 0 0 0 417 111 153 67 608 726 658 6 14 19 769 21 48 43 218 337 323 t 0 0 0 160 310 101 444 42 18 19 7 32 698 4 622 81 231 150 136 126
oligos_6nt_mkv3_m3_rc_shift5 (oligos_6nt_mkv3_m3_rc)				; positions_6nt_m5 versus oligos_6nt_mkv3_m3_rc; m=5/17; ncol2=14; w=0; offset=0; strand=R; shift=5; score=0.854151; -----cyrGACATGTCyrg- ; cor=; Ncor= a 0 0 0 0 0 145 169 237 64 626 10 750 38 5 14 26 105 243 175 0 c 0 0 0 0 0 323 260 42 25 8 790 8 19 10 167 700 431 143 173 0 g 0 0 0 0 0 172 143 431 700 167 10 19 8 791 8 25 42 259 323 0 t 0 0 0 0 0 175 243 105 26 14 5 38 750 9 626 64 237 170 144 0
positions_7nt_m1_rc_shift3 (positions_7nt_m1_rc)				; positions_6nt_m5 versus positions_7nt_m1_rc; m=6/17; ncol2=17; w=-2; offset=-2; strand=R; shift=3; score=0.815553; ---gyctGGGCATGTCtggr ; cor=; Ncor= a 0 0 0 75 80 73 81 90 33 100 5 650 54 7 9 33 82 109 133 213 c 0 0 0 117 231 401 133 13 18 5 695 15 14 13 115 537 142 112 151 80 g 0 0 0 365 99 143 53 584 620 592 5 11 35 686 12 70 41 386 303 310 t 0 0 0 157 304 97 447 27 43 17 9 38 611 8 578 74 449 107 127 111
positions_6nt_m3_rc_shift3 (positions_6nt_m3_rc)				; positions_6nt_m5 versus positions_6nt_m3_rc; m=7/17; ncol2=18; w=-2; offset=-2; strand=R; shift=3; score=0.795268; ---gyctGGGCATGTCyggr ; cor=; Ncor= a 0 0 0 95 97 71 111 137 34 117 5 779 69 9 12 28 103 190 146 265 c 0 0 0 159 312 504 196 27 23 10 847 23 19 14 157 714 270 149 160 91 g 0 0 0 430 117 175 82 662 769 728 8 17 36 837 19 56 54 399 435 394 t 0 0 0 186 344 120 481 44 44 15 10 51 746 10 682 72 443 132 129 120
positions_7nt_m2_shift3 (positions_7nt_m2)				; positions_6nt_m5 versus positions_7nt_m2; m=8/17; ncol2=16; w=-2; offset=-2; strand=D; shift=3; score=0.794631; ---gyctGGGCATGTCyrg- ; cor=; Ncor= a 0 0 0 87 95 75 86 98 30 99 7 744 68 11 12 36 94 231 151 0 c 0 0 0 149 302 475 169 18 23 12 799 20 17 19 135 612 452 182 198 0 g 0 0 0 419 110 166 70 668 740 699 6 18 33 788 19 67 44 240 333 0 t 0 0 0 167 315 106 497 38 29 12 10 40 704 4 656 107 232 169 140 0
positions_7nt_m3_shift4 (positions_7nt_m3)				; positions_6nt_m5 versus positions_7nt_m3; m=9/17; ncol2=16; w=-1; offset=-1; strand=D; shift=4; score=0.778644; ----yyCAGACATGTCTGrr ; cor=; Ncor= a 0 0 0 0 35 58 37 231 15 234 7 289 15 2 6 11 22 38 82 124 c 0 0 0 0 120 124 221 11 7 5 306 8 4 1 71 283 52 20 52 37 g 0 0 0 0 37 52 20 52 283 71 1 4 8 306 5 7 11 221 124 120 t 0 0 0 0 124 82 38 22 11 6 2 15 289 7 234 15 231 37 58 35
positions_7nt_m5_rc_shift3 (positions_7nt_m5_rc)				; positions_6nt_m5 versus positions_7nt_m5_rc; m=10/17; ncol2=18; w=-2; offset=-2; strand=R; shift=3; score=0.746695; ---gyctGGGCATGCCCagr ; cor=; Ncor= a 0 0 0 62 46 57 48 61 22 105 4 449 20 2 6 30 16 302 44 179 c 0 0 0 93 212 308 114 14 15 22 489 22 12 8 369 435 412 38 94 66 g 0 0 0 265 66 94 38 412 436 370 8 12 22 489 22 15 14 114 308 212 t 0 0 0 83 179 44 303 16 30 6 2 20 449 4 106 23 61 49 57 46
oligos_7nt_mkv4_m5_rc_shift6 (oligos_7nt_mkv4_m5_rc)				; positions_6nt_m5 versus oligos_7nt_mkv4_m5_rc; m=11/17; ncol2=12; w=0; offset=1; strand=R; shift=6; score=0.729803; ------yrGGCAwGTCys-- ; cor=; Ncor= a 0 0 0 0 0 0 111 202 19 50 8 560 355 1 17 8 125 113 0 0 c 0 0 0 0 0 0 194 34 14 14 573 12 16 14 45 555 229 178 0 0 g 0 0 0 0 0 0 84 272 549 528 11 10 26 577 12 11 43 189 0 0 t 0 0 0 0 0 0 208 89 15 5 5 15 200 5 523 23 200 117 0 0
positions_6nt_m2_rc_shift3 (positions_6nt_m2_rc)				; positions_6nt_m5 versus positions_6nt_m2_rc; m=12/17; ncol2=15; w=-2; offset=-2; strand=R; shift=3; score=0.712139; ---gyctGGGCATGTyyg-- ; cor=; Ncor= a 0 0 0 88 98 79 98 123 21 93 15 773 55 9 13 71 130 207 0 0 c 0 0 0 123 296 552 180 12 17 7 809 23 21 18 75 368 310 197 0 0 g 0 0 0 454 136 127 68 671 763 725 6 13 36 812 22 111 121 255 0 0 t 0 0 0 181 316 88 500 40 45 21 16 37 734 7 736 296 285 187 0 0
oligos_7nt_mkv4_m1_rc_shift0 (oligos_7nt_mkv4_m1_rc)				; positions_6nt_m5 versus oligos_7nt_mkv4_m1_rc; m=13/17; ncol2=19; w=-5; offset=-5; strand=R; shift=0; score=0.651818; CwtGyCTGGGCATGTCcms- ; cor=; Ncor= a 60 285 67 29 19 23 36 56 25 106 3 504 58 6 14 31 68 167 98 0 c 398 77 39 44 361 496 116 11 8 6 572 23 20 15 126 416 356 157 185 0 g 57 64 82 463 34 31 17 500 531 466 4 16 24 557 16 41 31 138 196 0 t 70 159 397 49 171 35 416 18 21 7 6 42 483 7 429 97 130 123 106 0
oligos_7nt_mkv4_m3_shift6 (oligos_7nt_mkv4_m3)				; positions_6nt_m5 versus oligos_7nt_mkv4_m3; m=14/17; ncol2=12; w=0; offset=1; strand=D; shift=6; score=0.641732; ------yrGACAAGTCyv-- ; cor=; Ncor= a 0 0 0 0 0 0 97 172 26 353 7 433 316 4 8 10 97 119 0 0 c 0 0 0 0 0 0 148 38 19 14 429 6 22 1 40 415 182 126 0 0 g 0 0 0 0 0 0 75 177 389 79 11 9 8 442 12 7 27 132 0 0 t 0 0 0 0 0 0 131 64 17 5 4 3 105 4 391 19 145 74 0 0
oligos_6nt_mkv3_m2_shift6 (oligos_6nt_mkv3_m2)				; positions_6nt_m5 versus oligos_6nt_mkv3_m2; m=15/17; ncol2=12; w=0; offset=1; strand=D; shift=6; score=0.628507; ------hrgACAAGTCys-- ; cor=; Ncor= a 0 0 0 0 0 0 146 198 81 397 7 556 404 5 11 18 140 141 0 0 c 0 0 0 0 0 0 168 70 59 44 557 11 24 7 16 535 202 157 0 0 g 0 0 0 0 0 0 108 209 350 116 12 9 15 560 6 6 54 172 0 0 t 0 0 0 0 0 0 159 104 91 24 5 5 138 9 548 22 185 111 0 0
oligos_7nt_mkv4_m4_rc_shift5 (oligos_7nt_mkv4_m4_rc)				; positions_6nt_m5 versus oligos_7nt_mkv4_m4_rc; m=16/17; ncol2=11; w=0; offset=0; strand=R; shift=5; score=0.59655; -----syGGGCtTGyc---- ; cor=; Ncor= a 0 0 0 0 0 59 83 7 5 17 10 117 7 8 51 83 0 0 0 0 c 0 0 0 0 0 222 144 5 16 10 451 23 17 17 127 211 0 0 0 0 g 0 0 0 0 0 137 102 461 450 443 11 35 33 447 100 91 0 0 0 0 t 0 0 0 0 0 59 148 4 6 7 5 302 420 5 199 92 0 0 0 0
oligos_6nt_mkv3_m1_shift5 (oligos_6nt_mkv3_m1)				; positions_6nt_m5 versus oligos_6nt_mkv3_m1; m=17/17; ncol2=24; w=0; offset=0; strand=D; shift=5; score=0.523672; -----skrGrCATGyCCrGr ; cor=; Ncor= a 0 0 0 0 0 110 103 155 91 354 5 435 53 5 15 25 27 331 33 196 c 0 0 0 0 0 149 139 33 22 15 542 20 8 2 387 508 390 16 7 6 g 0 0 0 0 0 202 163 304 416 178 9 17 22 563 4 5 13 192 513 358 t 0 0 0 0 0 112 168 81 44 26 17 101 490 3 167 35 143 34 20 13

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
positions_6nt_m4_shift1 (positions_6nt_m4)				; positions_6nt_m4; m=0 (reference); ncol1=16; shift=1; ncol=17; -ycygGACATGTCcrgr ; Alignment reference a 0 97 140 122 176 66 547 13 695 31 7 15 32 69 327 139 278 c 0 272 302 192 31 20 10 714 7 12 11 173 627 469 105 163 98 g 0 98 164 105 469 627 173 11 12 7 713 10 20 31 192 302 272 t 0 278 139 326 69 32 15 7 31 695 14 547 66 176 121 141 97
positions_6nt_m4_shift1 (positions_6nt_m4)				; positions_6nt_m4 versus positions_6nt_m4; m=1/17; ncol2=16; w=0; offset=0; strand=D; shift=1; score= 1; -ycygGACATGTCcrgr ; cor=; Ncor= a 0 97 140 122 176 66 547 13 695 31 7 15 32 69 327 139 278 c 0 272 302 192 31 20 10 714 7 12 11 173 627 469 105 163 98 g 0 98 164 105 469 627 173 11 12 7 713 10 20 31 192 302 272 t 0 278 139 326 69 32 15 7 31 695 14 547 66 176 121 141 97
oligos_6nt_mkv3_m3_shift2 (oligos_6nt_mkv3_m3)				; positions_6nt_m4 versus oligos_6nt_mkv3_m3; m=2/17; ncol2=14; w=0; offset=1; strand=D; shift=2; score=0.86677; --cyrGACATGTCyrg- ; cor=; Ncor= a 0 0 144 170 237 64 626 9 750 38 5 14 26 105 243 175 0 c 0 0 323 259 42 25 8 791 8 19 10 167 700 431 143 172 0 g 0 0 173 143 431 700 167 10 19 8 790 8 25 42 260 323 0 t 0 0 175 243 105 26 14 5 38 750 10 626 64 237 169 145 0
positions_6nt_m5_shift2 (positions_6nt_m5)				; positions_6nt_m4 versus positions_6nt_m5; m=3/17; ncol2=15; w=0; offset=1; strand=D; shift=2; score=0.864069; --cyrGGCATGTCyagr ; cor=; Ncor= a 0 0 91 115 289 25 110 3 676 29 6 15 22 54 305 134 257 c 0 0 329 261 37 10 9 720 18 14 8 129 613 441 126 154 76 g 0 0 172 87 340 685 598 8 17 14 714 13 36 35 172 316 309 t 0 0 142 271 68 14 17 3 23 677 6 577 63 204 131 130 92
positions_6nt_m1_shift1 (positions_6nt_m1)				; positions_6nt_m4 versus positions_6nt_m1; m=4/17; ncol2=17; w=0; offset=0; strand=D; shift=1; score=0.862943; -ycyrGACATGCCCagr ; cor=; Ncor= a 0 126 136 150 231 81 622 4 698 32 7 19 18 42 444 101 310 c 0 323 337 218 43 48 21 769 19 14 6 658 726 608 67 153 111 g 0 91 181 144 430 634 139 17 14 19 778 10 15 21 193 475 297 t 0 255 141 283 91 32 13 5 64 730 4 108 36 124 91 66 77
positions_7nt_m3_shift1 (positions_7nt_m3)				; positions_6nt_m4 versus positions_7nt_m3; m=5/17; ncol2=16; w=0; offset=0; strand=D; shift=1; score=0.856266; -yyCAGACATGTCTGrr ; cor=; Ncor= a 0 35 58 37 231 15 234 7 289 15 2 6 11 22 38 82 124 c 0 120 124 221 11 7 5 306 8 4 1 71 283 52 20 52 37 g 0 37 52 20 52 283 71 1 4 8 306 5 7 11 221 124 120 t 0 124 82 38 22 11 6 2 15 289 7 234 15 231 37 58 35
positions_7nt_m1_shift1 (positions_7nt_m1)				; positions_6nt_m4 versus positions_7nt_m1; m=6/17; ncol2=17; w=0; offset=0; strand=D; shift=1; score=0.815107; -yccaGACATGCCCagr ; cor=; Ncor= a 0 111 127 107 449 74 578 8 611 38 9 17 43 27 447 97 304 c 0 310 303 386 41 70 12 686 35 11 5 592 620 584 53 143 99 g 0 80 151 112 142 537 115 13 14 15 695 5 18 13 133 401 231 t 0 213 133 109 82 33 9 7 54 650 5 100 33 90 81 73 80
positions_7nt_m4_rc_shift1 (positions_7nt_m4_rc)				; positions_6nt_m4 versus positions_7nt_m4_rc; m=7/17; ncol2=15; w=0; offset=0; strand=R; shift=1; score=0.799716; -yccAGACATGCCyrg- ; cor=; Ncor= a 0 74 111 94 429 55 522 8 564 25 10 8 20 51 198 118 0 c 0 296 280 372 30 37 7 593 14 7 12 507 553 255 82 146 0 g 0 55 84 64 112 507 79 6 14 13 587 7 10 22 237 265 0 t 0 191 141 86 45 17 8 9 24 571 7 94 33 288 99 87 0
positions_7nt_m2_rc_shift2 (positions_7nt_m2_rc)				; positions_6nt_m4 versus positions_7nt_m2_rc; m=8/17; ncol2=16; w=0; offset=1; strand=R; shift=2; score=0.797936; --cyrGACATGCCCagr ; cor=; Ncor= a 0 0 140 169 232 107 656 4 704 40 10 12 29 38 497 106 315 c 0 0 333 240 44 67 19 788 33 18 6 699 740 668 70 166 110 g 0 0 198 182 452 612 135 19 17 20 799 12 23 18 169 475 302 t 0 0 151 231 94 36 12 11 68 744 7 99 30 98 86 75 95
positions_6nt_m3_shift0 (positions_6nt_m3)				; positions_6nt_m4 versus positions_6nt_m3; m=9/17; ncol2=18; w=-1; offset=-1; strand=D; shift=0; score= 0.7915; gyccrGACATGCCCagr ; cor=; Ncor= a 92 120 129 132 443 72 682 10 746 51 10 15 44 44 481 120 344 c 187 394 435 399 54 56 19 837 36 17 8 728 769 662 82 175 117 g 472 91 160 149 270 714 157 14 19 23 847 10 23 27 196 504 312 t 119 265 146 190 103 28 12 9 69 779 5 117 34 137 111 71 97
positions_7nt_m5_shift0 (positions_7nt_m5)				; positions_6nt_m4 versus positions_7nt_m5; m=10/17; ncol2=18; w=-1; offset=-1; strand=D; shift=0; score=0.779474; gyctGGGCATGCCCagr ; cor=; Ncor= a 62 46 57 49 61 23 106 4 449 20 2 6 30 16 303 44 179 c 94 212 308 114 14 15 22 489 22 12 8 370 436 412 38 94 66 g 264 66 94 38 412 435 369 8 12 22 489 22 15 14 114 308 212 t 83 179 44 302 16 30 6 2 20 449 4 105 22 61 48 57 46
positions_6nt_m2_shift3 (positions_6nt_m2)				; positions_6nt_m4 versus positions_6nt_m2; m=11/17; ncol2=15; w=0; offset=2; strand=D; shift=3; score=0.708081; ---crrACATGCCCagr ; cor=; Ncor= a 0 0 0 187 285 296 736 7 734 37 16 21 45 40 500 88 316 c 0 0 0 255 121 111 22 812 36 13 6 725 763 671 68 127 136 g 0 0 0 197 310 368 75 18 21 23 809 7 17 12 180 552 296 t 0 0 0 207 130 71 13 9 55 773 15 93 21 123 98 79 98
oligos_7nt_mkv4_m1_shift2 (oligos_7nt_mkv4_m1)				; positions_6nt_m4 versus oligos_7nt_mkv4_m1; m=12/17; ncol2=19; w=0; offset=1; strand=D; shift=2; score=0.66167; --skgGACATGCCCAGr ; cor=; Ncor= a 0 0 106 123 130 97 429 7 483 42 6 7 21 18 416 35 171 c 0 0 196 138 31 41 16 557 24 16 4 466 531 500 17 31 34 g 0 0 185 157 356 416 126 15 20 23 572 6 8 11 116 496 361 t 0 0 98 167 68 31 14 6 58 504 3 106 25 56 36 23 19
oligos_7nt_mkv4_m3_rc_shift3 (oligos_7nt_mkv4_m3_rc)				; positions_6nt_m4 versus oligos_7nt_mkv4_m3_rc; m=13/17; ncol2=12; w=0; offset=2; strand=R; shift=3; score=0.651321; ---brGACTTGTCyr-- ; cor=; Ncor= a 0 0 0 74 145 19 391 4 105 3 4 5 17 64 131 0 0 c 0 0 0 132 27 7 12 442 8 9 11 79 389 177 75 0 0 g 0 0 0 126 182 415 40 1 22 6 429 14 19 38 148 0 0 t 0 0 0 119 97 10 8 4 316 433 7 353 26 172 97 0 0
oligos_6nt_mkv3_m2_shift3 (oligos_6nt_mkv3_m2)				; positions_6nt_m4 versus oligos_6nt_mkv3_m2; m=14/17; ncol2=12; w=0; offset=2; strand=D; shift=3; score=0.632837; ---hrgACAAGTCys-- ; cor=; Ncor= a 0 0 0 146 198 81 397 7 556 404 5 11 18 140 141 0 0 c 0 0 0 168 70 59 44 557 11 24 7 16 535 202 157 0 0 g 0 0 0 108 209 350 116 12 9 15 560 6 6 54 172 0 0 t 0 0 0 159 104 91 24 5 5 138 9 548 22 185 111 0 0
oligos_7nt_mkv4_m5_shift3 (oligos_7nt_mkv4_m5)				; positions_6nt_m4 versus oligos_7nt_mkv4_m5; m=15/17; ncol2=12; w=0; offset=2; strand=D; shift=3; score=0.605758; ---srGACwTGCCyr-- ; cor=; Ncor= a 0 0 0 117 200 23 523 5 200 15 5 5 15 89 208 0 0 c 0 0 0 189 43 11 12 577 26 10 11 528 549 272 84 0 0 g 0 0 0 178 229 555 45 14 16 12 573 14 14 34 194 0 0 t 0 0 0 113 125 8 17 1 355 560 8 50 19 202 111 0 0
oligos_6nt_mkv3_m1_shift2 (oligos_6nt_mkv3_m1)				; positions_6nt_m4 versus oligos_6nt_mkv3_m1; m=16/17; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.535689; --skrGrCATGyCCrGr ; cor=; Ncor= a 0 0 110 103 155 91 354 5 435 53 5 15 25 27 331 33 196 c 0 0 149 139 33 22 15 542 20 8 2 387 508 390 16 7 6 g 0 0 202 163 304 416 178 9 17 22 563 4 5 13 192 513 358 t 0 0 112 168 81 44 26 17 101 490 3 167 35 143 34 20 13
oligos_7nt_mkv4_m4_rc_shift2 (oligos_7nt_mkv4_m4_rc)				; positions_6nt_m4 versus oligos_7nt_mkv4_m4_rc; m=17/17; ncol2=11; w=0; offset=1; strand=R; shift=2; score=0.497501; --syGGGCtTGyc---- ; cor=; Ncor= a 0 0 59 83 7 5 17 10 117 7 8 51 83 0 0 0 0 c 0 0 222 144 5 16 10 451 23 17 17 127 211 0 0 0 0 g 0 0 137 102 461 450 443 11 35 33 447 100 91 0 0 0 0 t 0 0 59 148 4 6 7 5 302 420 5 199 92 0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_mkv4_m5_shift3 (oligos_7nt_mkv4_m5)				; oligos_7nt_mkv4_m5; m=0 (reference); ncol1=12; shift=3; ncol=15; ---srGACwTGCCyr ; Alignment reference a 0 0 0 117 200 23 523 5 200 15 5 5 15 89 208 c 0 0 0 189 43 11 12 577 26 10 11 528 549 272 84 g 0 0 0 178 229 555 45 14 16 12 573 14 14 34 194 t 0 0 0 113 125 8 17 1 355 560 8 50 19 202 111
oligos_7nt_mkv4_m5_shift3 (oligos_7nt_mkv4_m5)				; oligos_7nt_mkv4_m5 versus oligos_7nt_mkv4_m5; m=1/17; ncol2=12; w=0; offset=0; strand=D; shift=3; score= 1; ---srGACwTGCCyr ; cor=; Ncor= a 0 0 0 117 200 23 523 5 200 15 5 5 15 89 208 c 0 0 0 189 43 11 12 577 26 10 11 528 549 272 84 g 0 0 0 178 229 555 45 14 16 12 573 14 14 34 194 t 0 0 0 113 125 8 17 1 355 560 8 50 19 202 111
oligos_7nt_mkv4_m3_rc_shift3 (oligos_7nt_mkv4_m3_rc)				; oligos_7nt_mkv4_m5 versus oligos_7nt_mkv4_m3_rc; m=2/17; ncol2=12; w=0; offset=0; strand=R; shift=3; score=0.886954; ---brGACTTGTCyr ; cor=; Ncor= a 0 0 0 74 145 19 391 4 105 3 4 5 17 64 131 c 0 0 0 132 27 7 12 442 8 9 11 79 389 177 75 g 0 0 0 126 182 415 40 1 22 6 429 14 19 38 148 t 0 0 0 119 97 10 8 4 316 433 7 353 26 172 97
oligos_6nt_mkv3_m2_rc_shift3 (oligos_6nt_mkv3_m2_rc)				; oligos_7nt_mkv4_m5 versus oligos_6nt_mkv3_m2_rc; m=3/17; ncol2=12; w=0; offset=0; strand=R; shift=3; score=0.88449; ---srGACTTGTcyd ; cor=; Ncor= a 0 0 0 111 185 22 548 9 138 5 5 24 91 104 159 c 0 0 0 172 54 6 6 560 15 9 12 116 350 209 108 g 0 0 0 157 202 535 16 7 24 11 557 44 59 70 168 t 0 0 0 141 140 18 11 5 404 556 7 397 81 198 146
positions_6nt_m5_rc_shift1 (positions_6nt_m5_rc)				; oligos_7nt_mkv4_m5 versus positions_6nt_m5_rc; m=4/17; ncol2=15; w=-2; offset=-2; strand=R; shift=1; score=0.729803; -yctrGACATGCCyr ; cor=; Ncor= a 0 92 130 131 204 63 577 6 677 23 3 17 14 68 271 c 0 309 316 172 35 36 13 714 14 17 8 598 685 340 87 g 0 76 154 126 441 613 129 8 14 18 720 9 10 37 261 t 0 257 134 305 54 22 15 6 29 676 3 110 25 289 115
positions_7nt_m4_rc_shift1 (positions_7nt_m4_rc)				; oligos_7nt_mkv4_m5 versus positions_7nt_m4_rc; m=5/17; ncol2=15; w=-2; offset=-2; strand=R; shift=1; score=0.717373; -yccAGACATGCCyr ; cor=; Ncor= a 0 74 111 94 429 55 522 8 564 25 10 8 20 51 198 c 0 296 280 372 30 37 7 593 14 7 12 507 553 255 82 g 0 55 84 64 112 507 79 6 14 13 587 7 10 22 237 t 0 191 141 86 45 17 8 9 24 571 7 94 33 288 99
oligos_6nt_mkv3_m3_shift2 (oligos_6nt_mkv3_m3)				; oligos_7nt_mkv4_m5 versus oligos_6nt_mkv3_m3; m=6/17; ncol2=14; w=-1; offset=-1; strand=D; shift=2; score=0.702019; --cyrGACATGTCyr ; cor=; Ncor= a 0 0 144 170 237 64 626 9 750 38 5 14 26 105 243 c 0 0 323 259 42 25 8 791 8 19 10 167 700 431 143 g 0 0 173 143 431 700 167 10 19 8 790 8 25 42 260 t 0 0 175 243 105 26 14 5 38 750 10 626 64 237 169
positions_6nt_m2_shift3 (positions_6nt_m2)				; oligos_7nt_mkv4_m5 versus positions_6nt_m2; m=7/17; ncol2=15; w=0; offset=0; strand=D; shift=3; score=0.698841; ---crrACATGCCCa ; cor=; Ncor= a 0 0 0 187 285 296 736 7 734 37 16 21 45 40 500 c 0 0 0 255 121 111 22 812 36 13 6 725 763 671 68 g 0 0 0 197 310 368 75 18 21 23 809 7 17 12 180 t 0 0 0 207 130 71 13 9 55 773 15 93 21 123 98
positions_7nt_m2_rc_shift2 (positions_7nt_m2_rc)				; oligos_7nt_mkv4_m5 versus positions_7nt_m2_rc; m=8/17; ncol2=16; w=-1; offset=-1; strand=R; shift=2; score=0.677958; --cyrGACATGCCCa ; cor=; Ncor= a 0 0 140 169 232 107 656 4 704 40 10 12 29 38 497 c 0 0 333 240 44 67 19 788 33 18 6 699 740 668 70 g 0 0 198 182 452 612 135 19 17 20 799 12 23 18 169 t 0 0 151 231 94 36 12 11 68 744 7 99 30 98 86
positions_6nt_m1_shift1 (positions_6nt_m1)				; oligos_7nt_mkv4_m5 versus positions_6nt_m1; m=9/17; ncol2=17; w=-2; offset=-2; strand=D; shift=1; score=0.641704; -ycyrGACATGCCCa ; cor=; Ncor= a 0 126 136 150 231 81 622 4 698 32 7 19 18 42 444 c 0 323 337 218 43 48 21 769 19 14 6 658 726 608 67 g 0 91 181 144 430 634 139 17 14 19 778 10 15 21 193 t 0 255 141 283 91 32 13 5 64 730 4 108 36 124 91
positions_7nt_m1_shift1 (positions_7nt_m1)				; oligos_7nt_mkv4_m5 versus positions_7nt_m1; m=10/17; ncol2=17; w=-2; offset=-2; strand=D; shift=1; score=0.626812; -yccaGACATGCCCa ; cor=; Ncor= a 0 111 127 107 449 74 578 8 611 38 9 17 43 27 447 c 0 310 303 386 41 70 12 686 35 11 5 592 620 584 53 g 0 80 151 112 142 537 115 13 14 15 695 5 18 13 133 t 0 213 133 109 82 33 9 7 54 650 5 100 33 90 81
positions_6nt_m3_shift0 (positions_6nt_m3)				; oligos_7nt_mkv4_m5 versus positions_6nt_m3; m=11/17; ncol2=18; w=-3; offset=-3; strand=D; shift=0; score=0.607141; gyccrGACATGCCCa ; cor=; Ncor= a 92 120 129 132 443 72 682 10 746 51 10 15 44 44 481 c 187 394 435 399 54 56 19 837 36 17 8 728 769 662 82 g 472 91 160 149 270 714 157 14 19 23 847 10 23 27 196 t 119 265 146 190 103 28 12 9 69 779 5 117 34 137 111
positions_6nt_m4_shift1 (positions_6nt_m4)				; oligos_7nt_mkv4_m5 versus positions_6nt_m4; m=12/17; ncol2=16; w=-2; offset=-2; strand=D; shift=1; score=0.605758; -ycygGACATGTCcr ; cor=; Ncor= a 0 97 140 122 176 66 547 13 695 31 7 15 32 69 327 c 0 272 302 192 31 20 10 714 7 12 11 173 627 469 105 g 0 98 164 105 469 627 173 11 12 7 713 10 20 31 192 t 0 278 139 326 69 32 15 7 31 695 14 547 66 176 121
positions_7nt_m3_shift1 (positions_7nt_m3)				; oligos_7nt_mkv4_m5 versus positions_7nt_m3; m=13/17; ncol2=16; w=-2; offset=-2; strand=D; shift=1; score=0.573481; -yyCAGACATGTCTG ; cor=; Ncor= a 0 35 58 37 231 15 234 7 289 15 2 6 11 22 38 c 0 120 124 221 11 7 5 306 8 4 1 71 283 52 20 g 0 37 52 20 52 283 71 1 4 8 306 5 7 11 221 t 0 124 82 38 22 11 6 2 15 289 7 234 15 231 37
oligos_7nt_mkv4_m1_shift2 (oligos_7nt_mkv4_m1)				; oligos_7nt_mkv4_m5 versus oligos_7nt_mkv4_m1; m=14/17; ncol2=19; w=-1; offset=-1; strand=D; shift=2; score=0.557995; --skgGACATGCCCA ; cor=; Ncor= a 0 0 106 123 130 97 429 7 483 42 6 7 21 18 416 c 0 0 196 138 31 41 16 557 24 16 4 466 531 500 17 g 0 0 185 157 356 416 126 15 20 23 572 6 8 11 116 t 0 0 98 167 68 31 14 6 58 504 3 106 25 56 36
oligos_7nt_mkv4_m4_shift5 (oligos_7nt_mkv4_m4)				; oligos_7nt_mkv4_m5 versus oligos_7nt_mkv4_m4; m=15/17; ncol2=11; w=0; offset=2; strand=D; shift=5; score=0.549349; -----grCAaGCCCr ; cor=; Ncor= a 0 0 0 0 0 92 199 5 420 302 5 7 6 4 148 c 0 0 0 0 0 91 100 447 33 35 11 443 450 461 102 g 0 0 0 0 0 211 127 17 17 23 451 10 16 5 144 t 0 0 0 0 0 83 51 8 7 117 10 17 5 7 83
positions_7nt_m5_shift0 (positions_7nt_m5)				; oligos_7nt_mkv4_m5 versus positions_7nt_m5; m=16/17; ncol2=18; w=-3; offset=-3; strand=D; shift=0; score=0.513849; gyctGGGCATGCCCa ; cor=; Ncor= a 62 46 57 49 61 23 106 4 449 20 2 6 30 16 303 c 94 212 308 114 14 15 22 489 22 12 8 370 436 412 38 g 264 66 94 38 412 435 369 8 12 22 489 22 15 14 114 t 83 179 44 302 16 30 6 2 20 449 4 105 22 61 48
oligos_6nt_mkv3_m1_shift2 (oligos_6nt_mkv3_m1)				; oligos_7nt_mkv4_m5 versus oligos_6nt_mkv3_m1; m=17/17; ncol2=24; w=-1; offset=-1; strand=D; shift=2; score=0.453392; --skrGrCATGyCCr ; cor=; Ncor= a 0 0 110 103 155 91 354 5 435 53 5 15 25 27 331 c 0 0 149 139 33 22 15 542 20 8 2 387 508 390 16 g 0 0 202 163 304 416 178 9 17 22 563 4 5 13 192 t 0 0 112 168 81 44 26 17 101 490 3 167 35 143 34

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
positions_7nt_m4_shift5 (positions_7nt_m4)				; positions_7nt_m4; m=0 (reference); ncol1=15; shift=5; ncol=20; -----cyrGGCATGTCTggr ; Alignment reference a 0 0 0 0 0 87 99 288 33 94 7 571 24 9 8 17 45 86 141 191 c 0 0 0 0 0 265 237 22 10 7 587 13 14 6 79 507 112 64 84 55 g 0 0 0 0 0 146 82 255 553 507 12 7 14 593 7 37 30 372 280 296 t 0 0 0 0 0 118 198 51 20 8 10 25 564 8 522 55 429 94 111 74
positions_7nt_m4_shift5 (positions_7nt_m4)				; positions_7nt_m4 versus positions_7nt_m4; m=1/18; ncol2=15; w=0; offset=0; strand=D; shift=5; score= 1; -----cyrGGCATGTCTggr ; cor=; Ncor= a 0 0 0 0 0 87 99 288 33 94 7 571 24 9 8 17 45 86 141 191 c 0 0 0 0 0 265 237 22 10 7 587 13 14 6 79 507 112 64 84 55 g 0 0 0 0 0 146 82 255 553 507 12 7 14 593 7 37 30 372 280 296 t 0 0 0 0 0 118 198 51 20 8 10 25 564 8 522 55 429 94 111 74
positions_6nt_m5_shift5 (positions_6nt_m5)				; positions_7nt_m4 versus positions_6nt_m5; m=2/18; ncol2=15; w=0; offset=0; strand=D; shift=5; score=0.942295; -----cyrGGCATGTCyagr ; cor=; Ncor= a 0 0 0 0 0 91 115 289 25 110 3 676 29 6 15 22 54 305 134 257 c 0 0 0 0 0 329 261 37 10 9 720 18 14 8 129 613 441 126 154 76 g 0 0 0 0 0 172 87 340 685 598 8 17 14 714 13 36 35 172 316 309 t 0 0 0 0 0 142 271 68 14 17 3 23 677 6 577 63 204 131 130 92
positions_7nt_m3_shift4 (positions_7nt_m3)				; positions_7nt_m4 versus positions_7nt_m3; m=3/18; ncol2=16; w=-1; offset=-1; strand=D; shift=4; score=0.847367; ----yyCAGACATGTCTGrr ; cor=; Ncor= a 0 0 0 0 35 58 37 231 15 234 7 289 15 2 6 11 22 38 82 124 c 0 0 0 0 120 124 221 11 7 5 306 8 4 1 71 283 52 20 52 37 g 0 0 0 0 37 52 20 52 283 71 1 4 8 306 5 7 11 221 124 120 t 0 0 0 0 124 82 38 22 11 6 2 15 289 7 234 15 231 37 58 35
positions_7nt_m1_rc_shift3 (positions_7nt_m1_rc)				; positions_7nt_m4 versus positions_7nt_m1_rc; m=4/18; ncol2=17; w=-2; offset=-2; strand=R; shift=3; score=0.842085; ---gyctGGGCATGTCtggr ; cor=; Ncor= a 0 0 0 75 80 73 81 90 33 100 5 650 54 7 9 33 82 109 133 213 c 0 0 0 117 231 401 133 13 18 5 695 15 14 13 115 537 142 112 151 80 g 0 0 0 365 99 143 53 584 620 592 5 11 35 686 12 70 41 386 303 310 t 0 0 0 157 304 97 447 27 43 17 9 38 611 8 578 74 449 107 127 111
oligos_6nt_mkv3_m3_shift5 (oligos_6nt_mkv3_m3)				; positions_7nt_m4 versus oligos_6nt_mkv3_m3; m=5/18; ncol2=14; w=0; offset=0; strand=D; shift=5; score=0.816769; -----cyrGACATGTCyrg- ; cor=; Ncor= a 0 0 0 0 0 144 170 237 64 626 9 750 38 5 14 26 105 243 175 0 c 0 0 0 0 0 323 259 42 25 8 791 8 19 10 167 700 431 143 172 0 g 0 0 0 0 0 173 143 431 700 167 10 19 8 790 8 25 42 260 323 0 t 0 0 0 0 0 175 243 105 26 14 5 38 750 10 626 64 237 169 145 0
positions_6nt_m1_rc_shift3 (positions_6nt_m1_rc)				; positions_7nt_m4 versus positions_6nt_m1_rc; m=6/18; ncol2=17; w=-2; offset=-2; strand=R; shift=3; score=0.813271; ---gyctGGGCATGTCyrgr ; cor=; Ncor= a 0 0 0 83 77 66 91 124 36 108 4 730 64 5 13 32 91 283 141 255 c 0 0 0 135 297 475 193 21 15 10 778 19 14 17 139 634 430 144 181 91 g 0 0 0 417 111 153 67 608 726 658 6 14 19 769 21 48 43 218 337 323 t 0 0 0 160 310 101 444 42 18 19 7 32 698 4 622 81 231 150 136 126
positions_6nt_m4_rc_shift4 (positions_6nt_m4_rc)				; positions_7nt_m4 versus positions_6nt_m4_rc; m=7/18; ncol2=16; w=-1; offset=-1; strand=R; shift=4; score=0.799716; ----ycygGACATGTCcrgr ; cor=; Ncor= a 0 0 0 0 97 141 121 176 66 547 14 695 31 7 15 32 69 326 139 278 c 0 0 0 0 272 302 192 31 20 10 713 7 12 11 173 627 469 105 164 98 g 0 0 0 0 98 163 105 469 627 173 11 12 7 714 10 20 31 192 302 272 t 0 0 0 0 278 139 327 69 32 15 7 31 695 13 547 66 176 122 140 97
positions_6nt_m3_rc_shift3 (positions_6nt_m3_rc)				; positions_7nt_m4 versus positions_6nt_m3_rc; m=8/18; ncol2=18; w=-2; offset=-2; strand=R; shift=3; score=0.798576; ---gyctGGGCATGTCyggr ; cor=; Ncor= a 0 0 0 95 97 71 111 137 34 117 5 779 69 9 12 28 103 190 146 265 c 0 0 0 159 312 504 196 27 23 10 847 23 19 14 157 714 270 149 160 91 g 0 0 0 430 117 175 82 662 769 728 8 17 36 837 19 56 54 399 435 394 t 0 0 0 186 344 120 481 44 44 15 10 51 746 10 682 72 443 132 129 120
positions_7nt_m2_shift3 (positions_7nt_m2)				; positions_7nt_m4 versus positions_7nt_m2; m=9/18; ncol2=16; w=-2; offset=-2; strand=D; shift=3; score=0.751464; ---gyctGGGCATGTCyrg- ; cor=; Ncor= a 0 0 0 87 95 75 86 98 30 99 7 744 68 11 12 36 94 231 151 0 c 0 0 0 149 302 475 169 18 23 12 799 20 17 19 135 612 452 182 198 0 g 0 0 0 419 110 166 70 668 740 699 6 18 33 788 19 67 44 240 333 0 t 0 0 0 167 315 106 497 38 29 12 10 40 704 4 656 107 232 169 140 0
oligos_7nt_mkv4_m5_rc_shift6 (oligos_7nt_mkv4_m5_rc)				; positions_7nt_m4 versus oligos_7nt_mkv4_m5_rc; m=10/18; ncol2=12; w=0; offset=1; strand=R; shift=6; score=0.717373; ------yrGGCAwGTCys-- ; cor=; Ncor= a 0 0 0 0 0 0 111 202 19 50 8 560 355 1 17 8 125 113 0 0 c 0 0 0 0 0 0 194 34 14 14 573 12 16 14 45 555 229 178 0 0 g 0 0 0 0 0 0 84 272 549 528 11 10 26 577 12 11 43 189 0 0 t 0 0 0 0 0 0 208 89 15 5 5 15 200 5 523 23 200 117 0 0
positions_6nt_m2_rc_shift3 (positions_6nt_m2_rc)				; positions_7nt_m4 versus positions_6nt_m2_rc; m=11/18; ncol2=15; w=-2; offset=-2; strand=R; shift=3; score=0.691873; ---gyctGGGCATGTyyg-- ; cor=; Ncor= a 0 0 0 88 98 79 98 123 21 93 15 773 55 9 13 71 130 207 0 0 c 0 0 0 123 296 552 180 12 17 7 809 23 21 18 75 368 310 197 0 0 g 0 0 0 454 136 127 68 671 763 725 6 13 36 812 22 111 121 255 0 0 t 0 0 0 181 316 88 500 40 45 21 16 37 734 7 736 296 285 187 0 0
positions_7nt_m5_rc_shift3 (positions_7nt_m5_rc)				; positions_7nt_m4 versus positions_7nt_m5_rc; m=12/18; ncol2=18; w=-2; offset=-2; strand=R; shift=3; score=0.655029; ---gyctGGGCATGCCCagr ; cor=; Ncor= a 0 0 0 62 46 57 48 61 22 105 4 449 20 2 6 30 16 302 44 179 c 0 0 0 93 212 308 114 14 15 22 489 22 12 8 369 435 412 38 94 66 g 0 0 0 265 66 94 38 412 436 370 8 12 22 489 22 15 14 114 308 212 t 0 0 0 83 179 44 303 16 30 6 2 20 449 4 106 23 61 49 57 46
oligos_7nt_mkv4_m3_shift6 (oligos_7nt_mkv4_m3)				; positions_7nt_m4 versus oligos_7nt_mkv4_m3; m=13/18; ncol2=12; w=0; offset=1; strand=D; shift=6; score=0.625124; ------yrGACAAGTCyv-- ; cor=; Ncor= a 0 0 0 0 0 0 97 172 26 353 7 433 316 4 8 10 97 119 0 0 c 0 0 0 0 0 0 148 38 19 14 429 6 22 1 40 415 182 126 0 0 g 0 0 0 0 0 0 75 177 389 79 11 9 8 442 12 7 27 132 0 0 t 0 0 0 0 0 0 131 64 17 5 4 3 105 4 391 19 145 74 0 0
oligos_6nt_mkv3_m2_shift6 (oligos_6nt_mkv3_m2)				; positions_7nt_m4 versus oligos_6nt_mkv3_m2; m=14/18; ncol2=12; w=0; offset=1; strand=D; shift=6; score=0.619964; ------hrgACAAGTCys-- ; cor=; Ncor= a 0 0 0 0 0 0 146 198 81 397 7 556 404 5 11 18 140 141 0 0 c 0 0 0 0 0 0 168 70 59 44 557 11 24 7 16 535 202 157 0 0 g 0 0 0 0 0 0 108 209 350 116 12 9 15 560 6 6 54 172 0 0 t 0 0 0 0 0 0 159 104 91 24 5 5 138 9 548 22 185 111 0 0
oligos_7nt_mkv4_m1_rc_shift0 (oligos_7nt_mkv4_m1_rc)				; positions_7nt_m4 versus oligos_7nt_mkv4_m1_rc; m=15/18; ncol2=19; w=-5; offset=-5; strand=R; shift=0; score=0.602204; CwtGyCTGGGCATGTCcms- ; cor=; Ncor= a 60 285 67 29 19 23 36 56 25 106 3 504 58 6 14 31 68 167 98 0 c 398 77 39 44 361 496 116 11 8 6 572 23 20 15 126 416 356 157 185 0 g 57 64 82 463 34 31 17 500 531 466 4 16 24 557 16 41 31 138 196 0 t 70 159 397 49 171 35 416 18 21 7 6 42 483 7 429 97 130 123 106 0
oligos_7nt_mkv4_m4_rc_shift5 (oligos_7nt_mkv4_m4_rc)				; positions_7nt_m4 versus oligos_7nt_mkv4_m4_rc; m=16/18; ncol2=11; w=0; offset=0; strand=R; shift=5; score=0.582337; -----syGGGCtTGyc---- ; cor=; Ncor= a 0 0 0 0 0 59 83 7 5 17 10 117 7 8 51 83 0 0 0 0 c 0 0 0 0 0 222 144 5 16 10 451 23 17 17 127 211 0 0 0 0 g 0 0 0 0 0 137 102 461 450 443 11 35 33 447 100 91 0 0 0 0 t 0 0 0 0 0 59 148 4 6 7 5 302 420 5 199 92 0 0 0 0
oligos_6nt_mkv3_m1_rc_shift5 (oligos_6nt_mkv3_m1_rc)				; positions_7nt_m4 versus oligos_6nt_mkv3_m1_rc; m=17/18; ncol2=24; w=0; offset=0; strand=R; shift=5; score=0.531997; -----skrGrCATGyCyGGr ; cor=; Ncor= a 0 0 0 0 0 114 112 154 84 329 7 422 44 2 13 20 34 143 35 167 c 0 0 0 0 0 156 136 38 25 22 535 28 10 3 358 513 192 13 5 4 g 0 0 0 0 0 180 154 315 420 196 11 17 22 565 6 7 16 390 508 387 t 0 0 0 0 0 123 171 66 44 26 20 106 497 3 196 33 331 27 25 15
oligos_7nt_mkv4_m2_rc_shift10 (oligos_7nt_mkv4_m2_rc)				; positions_7nt_m4 versus oligos_7nt_mkv4_m2_rc; m=18/18; ncol2=12; w=0; offset=5; strand=R; shift=10; score=0.498004; ----------caTGTCTGGG ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 78 252 23 12 17 12 41 15 25 48 c 0 0 0 0 0 0 0 0 0 0 366 127 7 30 106 595 19 1 6 23 g 0 0 0 0 0 0 0 0 0 0 80 125 17 586 32 21 9 620 594 556 t 0 0 0 0 0 0 0 0 0 0 125 145 602 21 494 21 580 13 24 22

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
positions_7nt_m5_shift0 (positions_7nt_m5)				; positions_7nt_m5; m=0 (reference); ncol1=18; shift=0; ncol=18; gyctGGGCATGCCCagrc ; Alignment reference a 62 46 57 49 61 23 106 4 449 20 2 6 30 16 303 44 179 83 c 94 212 308 114 14 15 22 489 22 12 8 370 436 412 38 94 66 265 g 264 66 94 38 412 435 369 8 12 22 489 22 15 14 114 308 212 93 t 83 179 44 302 16 30 6 2 20 449 4 105 22 61 48 57 46 62
positions_7nt_m5_shift0 (positions_7nt_m5)				; positions_7nt_m5 versus positions_7nt_m5; m=1/14; ncol2=18; w=0; offset=0; strand=D; shift=0; score= 1; gyctGGGCATGCCCagrc ; cor=; Ncor= a 62 46 57 49 61 23 106 4 449 20 2 6 30 16 303 44 179 83 c 94 212 308 114 14 15 22 489 22 12 8 370 436 412 38 94 66 265 g 264 66 94 38 412 435 369 8 12 22 489 22 15 14 114 308 212 93 t 83 179 44 302 16 30 6 2 20 449 4 105 22 61 48 57 46 62
positions_6nt_m3_shift0 (positions_6nt_m3)				; positions_7nt_m5 versus positions_6nt_m3; m=2/14; ncol2=18; w=0; offset=0; strand=D; shift=0; score=0.885966; gyccrGACATGCCCagrc ; cor=; Ncor= a 92 120 129 132 443 72 682 10 746 51 10 15 44 44 481 120 344 186 c 187 394 435 399 54 56 19 837 36 17 8 728 769 662 82 175 117 430 g 472 91 160 149 270 714 157 14 19 23 847 10 23 27 196 504 312 159 t 119 265 146 190 103 28 12 9 69 779 5 117 34 137 111 71 97 95
positions_6nt_m1_shift1 (positions_6nt_m1)				; positions_7nt_m5 versus positions_6nt_m1; m=3/14; ncol2=17; w=0; offset=1; strand=D; shift=1; score=0.86862; -ycyrGACATGCCCagrc ; cor=; Ncor= a 0 126 136 150 231 81 622 4 698 32 7 19 18 42 444 101 310 160 c 0 323 337 218 43 48 21 769 19 14 6 658 726 608 67 153 111 417 g 0 91 181 144 430 634 139 17 14 19 778 10 15 21 193 475 297 135 t 0 255 141 283 91 32 13 5 64 730 4 108 36 124 91 66 77 83
positions_7nt_m2_rc_shift2 (positions_7nt_m2_rc)				; positions_7nt_m5 versus positions_7nt_m2_rc; m=4/14; ncol2=16; w=0; offset=2; strand=R; shift=2; score=0.808457; --cyrGACATGCCCagrc ; cor=; Ncor= a 0 0 140 169 232 107 656 4 704 40 10 12 29 38 497 106 315 167 c 0 0 333 240 44 67 19 788 33 18 6 699 740 668 70 166 110 419 g 0 0 198 182 452 612 135 19 17 20 799 12 23 18 169 475 302 149 t 0 0 151 231 94 36 12 11 68 744 7 99 30 98 86 75 95 87
positions_7nt_m1_shift1 (positions_7nt_m1)				; positions_7nt_m5 versus positions_7nt_m1; m=5/14; ncol2=17; w=0; offset=1; strand=D; shift=1; score=0.800625; -yccaGACATGCCCagrc ; cor=; Ncor= a 0 111 127 107 449 74 578 8 611 38 9 17 43 27 447 97 304 157 c 0 310 303 386 41 70 12 686 35 11 5 592 620 584 53 143 99 365 g 0 80 151 112 142 537 115 13 14 15 695 5 18 13 133 401 231 117 t 0 213 133 109 82 33 9 7 54 650 5 100 33 90 81 73 80 75
positions_6nt_m4_shift1 (positions_6nt_m4)				; positions_7nt_m5 versus positions_6nt_m4; m=6/14; ncol2=16; w=0; offset=1; strand=D; shift=1; score=0.779474; -ycygGACATGTCcrgr- ; cor=; Ncor= a 0 97 140 122 176 66 547 13 695 31 7 15 32 69 327 139 278 0 c 0 272 302 192 31 20 10 714 7 12 11 173 627 469 105 163 98 0 g 0 98 164 105 469 627 173 11 12 7 713 10 20 31 192 302 272 0 t 0 278 139 326 69 32 15 7 31 695 14 547 66 176 121 141 97 0
positions_6nt_m5_rc_shift1 (positions_6nt_m5_rc)				; positions_7nt_m5 versus positions_6nt_m5_rc; m=7/14; ncol2=15; w=0; offset=1; strand=R; shift=1; score=0.746695; -yctrGACATGCCyrg-- ; cor=; Ncor= a 0 92 130 131 204 63 577 6 677 23 3 17 14 68 271 142 0 0 c 0 309 316 172 35 36 13 714 14 17 8 598 685 340 87 172 0 0 g 0 76 154 126 441 613 129 8 14 18 720 9 10 37 261 329 0 0 t 0 257 134 305 54 22 15 6 29 676 3 110 25 289 115 91 0 0
positions_6nt_m2_shift3 (positions_6nt_m2)				; positions_7nt_m5 versus positions_6nt_m2; m=8/14; ncol2=15; w=0; offset=3; strand=D; shift=3; score=0.709059; ---crrACATGCCCagrc ; cor=; Ncor= a 0 0 0 187 285 296 736 7 734 37 16 21 45 40 500 88 316 181 c 0 0 0 255 121 111 22 812 36 13 6 725 763 671 68 127 136 454 g 0 0 0 197 310 368 75 18 21 23 809 7 17 12 180 552 296 123 t 0 0 0 207 130 71 13 9 55 773 15 93 21 123 98 79 98 88
oligos_7nt_mkv4_m1_shift2 (oligos_7nt_mkv4_m1)				; positions_7nt_m5 versus oligos_7nt_mkv4_m1; m=9/14; ncol2=19; w=0; offset=2; strand=D; shift=2; score=0.688122; --skgGACATGCCCAGrC ; cor=; Ncor= a 0 0 106 123 130 97 429 7 483 42 6 7 21 18 416 35 171 49 c 0 0 196 138 31 41 16 557 24 16 4 466 531 500 17 31 34 463 g 0 0 185 157 356 416 126 15 20 23 572 6 8 11 116 496 361 44 t 0 0 98 167 68 31 14 6 58 504 3 106 25 56 36 23 19 29
positions_7nt_m4_rc_shift1 (positions_7nt_m4_rc)				; positions_7nt_m5 versus positions_7nt_m4_rc; m=10/14; ncol2=15; w=0; offset=1; strand=R; shift=1; score=0.655029; -yccAGACATGCCyrg-- ; cor=; Ncor= a 0 74 111 94 429 55 522 8 564 25 10 8 20 51 198 118 0 0 c 0 296 280 372 30 37 7 593 14 7 12 507 553 255 82 146 0 0 g 0 55 84 64 112 507 79 6 14 13 587 7 10 22 237 265 0 0 t 0 191 141 86 45 17 8 9 24 571 7 94 33 288 99 87 0 0
oligos_6nt_mkv3_m3_shift2 (oligos_6nt_mkv3_m3)				; positions_7nt_m5 versus oligos_6nt_mkv3_m3; m=11/14; ncol2=14; w=0; offset=2; strand=D; shift=2; score=0.645753; --cyrGACATGTCyrg-- ; cor=; Ncor= a 0 0 144 170 237 64 626 9 750 38 5 14 26 105 243 175 0 0 c 0 0 323 259 42 25 8 791 8 19 10 167 700 431 143 172 0 0 g 0 0 173 143 431 700 167 10 19 8 790 8 25 42 260 323 0 0 t 0 0 175 243 105 26 14 5 38 750 10 626 64 237 169 145 0 0
oligos_6nt_mkv3_m1_shift2 (oligos_6nt_mkv3_m1)				; positions_7nt_m5 versus oligos_6nt_mkv3_m1; m=12/14; ncol2=24; w=0; offset=2; strand=D; shift=2; score=0.542889; --skrGrCATGyCCrGrC ; cor=; Ncor= a 0 0 110 103 155 91 354 5 435 53 5 15 25 27 331 33 196 3 c 0 0 149 139 33 22 15 542 20 8 2 387 508 390 16 7 6 565 g 0 0 202 163 304 416 178 9 17 22 563 4 5 13 192 513 358 3 t 0 0 112 168 81 44 26 17 101 490 3 167 35 143 34 20 13 2
oligos_7nt_mkv4_m5_shift3 (oligos_7nt_mkv4_m5)				; positions_7nt_m5 versus oligos_7nt_mkv4_m5; m=13/14; ncol2=12; w=0; offset=3; strand=D; shift=3; score=0.513849; ---srGACwTGCCyr--- ; cor=; Ncor= a 0 0 0 117 200 23 523 5 200 15 5 5 15 89 208 0 0 0 c 0 0 0 189 43 11 12 577 26 10 11 528 549 272 84 0 0 0 g 0 0 0 178 229 555 45 14 16 12 573 14 14 34 194 0 0 0 t 0 0 0 113 125 8 17 1 355 560 8 50 19 202 111 0 0 0
oligos_7nt_mkv4_m4_shift5 (oligos_7nt_mkv4_m4)				; positions_7nt_m5 versus oligos_7nt_mkv4_m4; m=14/14; ncol2=11; w=0; offset=5; strand=D; shift=5; score=0.507732; -----grCAaGCCCrs-- ; cor=; Ncor= a 0 0 0 0 0 92 199 5 420 302 5 7 6 4 148 59 0 0 c 0 0 0 0 0 91 100 447 33 35 11 443 450 461 102 137 0 0 g 0 0 0 0 0 211 127 17 17 23 451 10 16 5 144 222 0 0 t 0 0 0 0 0 83 51 8 7 117 10 17 5 7 83 59 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_mkv4_m1_shift2 (oligos_7nt_mkv4_m1)				; oligos_7nt_mkv4_m1; m=0 (reference); ncol1=19; shift=2; ncol=21; --skgGACATGCCCAGrCawG ; Alignment reference a 0 0 106 123 130 97 429 7 483 42 6 7 21 18 416 35 171 49 397 159 70 c 0 0 196 138 31 41 16 557 24 16 4 466 531 500 17 31 34 463 82 64 57 g 0 0 185 157 356 416 126 15 20 23 572 6 8 11 116 496 361 44 39 77 398 t 0 0 98 167 68 31 14 6 58 504 3 106 25 56 36 23 19 29 67 285 60
oligos_7nt_mkv4_m1_shift2 (oligos_7nt_mkv4_m1)				; oligos_7nt_mkv4_m1 versus oligos_7nt_mkv4_m1; m=1/18; ncol2=19; w=0; offset=0; strand=D; shift=2; score= 1; --skgGACATGCCCAGrCawG ; cor=; Ncor= a 0 0 106 123 130 97 429 7 483 42 6 7 21 18 416 35 171 49 397 159 70 c 0 0 196 138 31 41 16 557 24 16 4 466 531 500 17 31 34 463 82 64 57 g 0 0 185 157 356 416 126 15 20 23 572 6 8 11 116 496 361 44 39 77 398 t 0 0 98 167 68 31 14 6 58 504 3 106 25 56 36 23 19 29 67 285 60
positions_7nt_m2_rc_shift2 (positions_7nt_m2_rc)				; oligos_7nt_mkv4_m1 versus positions_7nt_m2_rc; m=2/18; ncol2=16; w=0; offset=0; strand=R; shift=2; score=0.817155; --cyrGACATGCCCagrc--- ; cor=; Ncor= a 0 0 140 169 232 107 656 4 704 40 10 12 29 38 497 106 315 167 0 0 0 c 0 0 333 240 44 67 19 788 33 18 6 699 740 668 70 166 110 419 0 0 0 g 0 0 198 182 452 612 135 19 17 20 799 12 23 18 169 475 302 149 0 0 0 t 0 0 151 231 94 36 12 11 68 744 7 99 30 98 86 75 95 87 0 0 0
positions_6nt_m1_shift1 (positions_6nt_m1)				; oligos_7nt_mkv4_m1 versus positions_6nt_m1; m=3/18; ncol2=17; w=-1; offset=-1; strand=D; shift=1; score=0.774791; -ycyrGACATGCCCagrc--- ; cor=; Ncor= a 0 126 136 150 231 81 622 4 698 32 7 19 18 42 444 101 310 160 0 0 0 c 0 323 337 218 43 48 21 769 19 14 6 658 726 608 67 153 111 417 0 0 0 g 0 91 181 144 430 634 139 17 14 19 778 10 15 21 193 475 297 135 0 0 0 t 0 255 141 283 91 32 13 5 64 730 4 108 36 124 91 66 77 83 0 0 0
oligos_6nt_mkv3_m1_shift2 (oligos_6nt_mkv3_m1)				; oligos_7nt_mkv4_m1 versus oligos_6nt_mkv3_m1; m=4/18; ncol2=24; w=0; offset=0; strand=D; shift=2; score=0.766561; --skrGrCATGyCCrGrCATG ; cor=; Ncor= a 0 0 110 103 155 91 354 5 435 53 5 15 25 27 331 33 196 3 497 106 20 c 0 0 149 139 33 22 15 542 20 8 2 387 508 390 16 7 6 565 22 17 11 g 0 0 202 163 304 416 178 9 17 22 563 4 5 13 192 513 358 3 10 28 535 t 0 0 112 168 81 44 26 17 101 490 3 167 35 143 34 20 13 2 44 422 7
positions_6nt_m2_shift3 (positions_6nt_m2)				; oligos_7nt_mkv4_m1 versus positions_6nt_m2; m=5/18; ncol2=15; w=0; offset=1; strand=D; shift=3; score=0.75497; ---crrACATGCCCagrc--- ; cor=; Ncor= a 0 0 0 187 285 296 736 7 734 37 16 21 45 40 500 88 316 181 0 0 0 c 0 0 0 255 121 111 22 812 36 13 6 725 763 671 68 127 136 454 0 0 0 g 0 0 0 197 310 368 75 18 21 23 809 7 17 12 180 552 296 123 0 0 0 t 0 0 0 207 130 71 13 9 55 773 15 93 21 123 98 79 98 88 0 0 0
positions_7nt_m1_shift1 (positions_7nt_m1)				; oligos_7nt_mkv4_m1 versus positions_7nt_m1; m=6/18; ncol2=17; w=-1; offset=-1; strand=D; shift=1; score=0.741163; -yccaGACATGCCCagrc--- ; cor=; Ncor= a 0 111 127 107 449 74 578 8 611 38 9 17 43 27 447 97 304 157 0 0 0 c 0 310 303 386 41 70 12 686 35 11 5 592 620 584 53 143 99 365 0 0 0 g 0 80 151 112 142 537 115 13 14 15 695 5 18 13 133 401 231 117 0 0 0 t 0 213 133 109 82 33 9 7 54 650 5 100 33 90 81 73 80 75 0 0 0
positions_6nt_m3_shift0 (positions_6nt_m3)				; oligos_7nt_mkv4_m1 versus positions_6nt_m3; m=7/18; ncol2=18; w=-2; offset=-2; strand=D; shift=0; score=0.717939; gyccrGACATGCCCagrc--- ; cor=; Ncor= a 92 120 129 132 443 72 682 10 746 51 10 15 44 44 481 120 344 186 0 0 0 c 187 394 435 399 54 56 19 837 36 17 8 728 769 662 82 175 117 430 0 0 0 g 472 91 160 149 270 714 157 14 19 23 847 10 23 27 196 504 312 159 0 0 0 t 119 265 146 190 103 28 12 9 69 779 5 117 34 137 111 71 97 95 0 0 0
positions_7nt_m5_shift0 (positions_7nt_m5)				; oligos_7nt_mkv4_m1 versus positions_7nt_m5; m=8/18; ncol2=18; w=-2; offset=-2; strand=D; shift=0; score=0.688122; gyctGGGCATGCCCagrc--- ; cor=; Ncor= a 62 46 57 49 61 23 106 4 449 20 2 6 30 16 303 44 179 83 0 0 0 c 94 212 308 114 14 15 22 489 22 12 8 370 436 412 38 94 66 265 0 0 0 g 264 66 94 38 412 435 369 8 12 22 489 22 15 14 114 308 212 93 0 0 0 t 83 179 44 302 16 30 6 2 20 449 4 105 22 61 48 57 46 62 0 0 0
positions_6nt_m4_shift1 (positions_6nt_m4)				; oligos_7nt_mkv4_m1 versus positions_6nt_m4; m=9/18; ncol2=16; w=-1; offset=-1; strand=D; shift=1; score=0.66167; -ycygGACATGTCcrgr---- ; cor=; Ncor= a 0 97 140 122 176 66 547 13 695 31 7 15 32 69 327 139 278 0 0 0 0 c 0 272 302 192 31 20 10 714 7 12 11 173 627 469 105 163 98 0 0 0 0 g 0 98 164 105 469 627 173 11 12 7 713 10 20 31 192 302 272 0 0 0 0 t 0 278 139 326 69 32 15 7 31 695 14 547 66 176 121 141 97 0 0 0 0
positions_6nt_m5_rc_shift1 (positions_6nt_m5_rc)				; oligos_7nt_mkv4_m1 versus positions_6nt_m5_rc; m=10/18; ncol2=15; w=-1; offset=-1; strand=R; shift=1; score=0.651818; -yctrGACATGCCyrg----- ; cor=; Ncor= a 0 92 130 131 204 63 577 6 677 23 3 17 14 68 271 142 0 0 0 0 0 c 0 309 316 172 35 36 13 714 14 17 8 598 685 340 87 172 0 0 0 0 0 g 0 76 154 126 441 613 129 8 14 18 720 9 10 37 261 329 0 0 0 0 0 t 0 257 134 305 54 22 15 6 29 676 3 110 25 289 115 91 0 0 0 0 0
oligos_6nt_mkv3_m3_shift2 (oligos_6nt_mkv3_m3)				; oligos_7nt_mkv4_m1 versus oligos_6nt_mkv3_m3; m=11/18; ncol2=14; w=0; offset=0; strand=D; shift=2; score=0.632778; --cyrGACATGTCyrg----- ; cor=; Ncor= a 0 0 144 170 237 64 626 9 750 38 5 14 26 105 243 175 0 0 0 0 0 c 0 0 323 259 42 25 8 791 8 19 10 167 700 431 143 172 0 0 0 0 0 g 0 0 173 143 431 700 167 10 19 8 790 8 25 42 260 323 0 0 0 0 0 t 0 0 175 243 105 26 14 5 38 750 10 626 64 237 169 145 0 0 0 0 0
positions_7nt_m4_rc_shift1 (positions_7nt_m4_rc)				; oligos_7nt_mkv4_m1 versus positions_7nt_m4_rc; m=12/18; ncol2=15; w=-1; offset=-1; strand=R; shift=1; score=0.602204; -yccAGACATGCCyrg----- ; cor=; Ncor= a 0 74 111 94 429 55 522 8 564 25 10 8 20 51 198 118 0 0 0 0 0 c 0 296 280 372 30 37 7 593 14 7 12 507 553 255 82 146 0 0 0 0 0 g 0 55 84 64 112 507 79 6 14 13 587 7 10 22 237 265 0 0 0 0 0 t 0 191 141 86 45 17 8 9 24 571 7 94 33 288 99 87 0 0 0 0 0
oligos_7nt_mkv4_m2_shift9 (oligos_7nt_mkv4_m2)				; oligos_7nt_mkv4_m1 versus oligos_7nt_mkv4_m2; m=13/18; ncol2=12; w=0; offset=7; strand=D; shift=9; score=0.559598; ---------tgCCCAGACAtg ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 115 78 22 24 13 580 21 494 21 602 145 125 c 0 0 0 0 0 0 0 0 0 108 128 556 594 620 9 21 32 586 17 125 80 g 0 0 0 0 0 0 0 0 0 99 362 23 6 1 19 595 106 30 7 127 366 t 0 0 0 0 0 0 0 0 0 327 81 48 25 15 41 12 17 12 23 252 78
oligos_7nt_mkv4_m5_shift3 (oligos_7nt_mkv4_m5)				; oligos_7nt_mkv4_m1 versus oligos_7nt_mkv4_m5; m=14/18; ncol2=12; w=0; offset=1; strand=D; shift=3; score=0.557995; ---srGACwTGCCyr------ ; cor=; Ncor= a 0 0 0 117 200 23 523 5 200 15 5 5 15 89 208 0 0 0 0 0 0 c 0 0 0 189 43 11 12 577 26 10 11 528 549 272 84 0 0 0 0 0 0 g 0 0 0 178 229 555 45 14 16 12 573 14 14 34 194 0 0 0 0 0 0 t 0 0 0 113 125 8 17 1 355 560 8 50 19 202 111 0 0 0 0 0 0
positions_7nt_m3_shift1 (positions_7nt_m3)				; oligos_7nt_mkv4_m1 versus positions_7nt_m3; m=15/18; ncol2=16; w=-1; offset=-1; strand=D; shift=1; score=0.528804; -yyCAGACATGTCTGrr---- ; cor=; Ncor= a 0 35 58 37 231 15 234 7 289 15 2 6 11 22 38 82 124 0 0 0 0 c 0 120 124 221 11 7 5 306 8 4 1 71 283 52 20 52 37 0 0 0 0 g 0 37 52 20 52 283 71 1 4 8 306 5 7 11 221 124 120 0 0 0 0 t 0 124 82 38 22 11 6 2 15 289 7 234 15 231 37 58 35 0 0 0 0
oligos_7nt_mkv4_m4_shift5 (oligos_7nt_mkv4_m4)				; oligos_7nt_mkv4_m1 versus oligos_7nt_mkv4_m4; m=16/18; ncol2=11; w=0; offset=3; strand=D; shift=5; score=0.492441; -----grCAaGCCCrs----- ; cor=; Ncor= a 0 0 0 0 0 92 199 5 420 302 5 7 6 4 148 59 0 0 0 0 0 c 0 0 0 0 0 91 100 447 33 35 11 443 450 461 102 137 0 0 0 0 0 g 0 0 0 0 0 211 127 17 17 23 451 10 16 5 144 222 0 0 0 0 0 t 0 0 0 0 0 83 51 8 7 117 10 17 5 7 83 59 0 0 0 0 0
oligos_7nt_mkv4_m3_rc_shift3 (oligos_7nt_mkv4_m3_rc)				; oligos_7nt_mkv4_m1 versus oligos_7nt_mkv4_m3_rc; m=17/18; ncol2=12; w=0; offset=1; strand=R; shift=3; score=0.484815; ---brGACTTGTCyr------ ; cor=; Ncor= a 0 0 0 74 145 19 391 4 105 3 4 5 17 64 131 0 0 0 0 0 0 c 0 0 0 132 27 7 12 442 8 9 11 79 389 177 75 0 0 0 0 0 0 g 0 0 0 126 182 415 40 1 22 6 429 14 19 38 148 0 0 0 0 0 0 t 0 0 0 119 97 10 8 4 316 433 7 353 26 172 97 0 0 0 0 0 0
oligos_6nt_mkv3_m2_rc_shift3 (oligos_6nt_mkv3_m2_rc)				; oligos_7nt_mkv4_m1 versus oligos_6nt_mkv3_m2_rc; m=18/18; ncol2=12; w=0; offset=1; strand=R; shift=3; score=0.472155; ---srGACTTGTcyd------ ; cor=; Ncor= a 0 0 0 111 185 22 548 9 138 5 5 24 91 104 159 0 0 0 0 0 0 c 0 0 0 172 54 6 6 560 15 9 12 116 350 209 108 0 0 0 0 0 0 g 0 0 0 157 202 535 16 7 24 11 557 44 59 70 168 0 0 0 0 0 0 t 0 0 0 141 140 18 11 5 404 556 7 397 81 198 146 0 0 0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
positions_7nt_m2_shift8 (positions_7nt_m2)				; positions_7nt_m2; m=0 (reference); ncol1=16; shift=8; ncol=24; --------gyctGGGCATGTCyrg ; Alignment reference a 0 0 0 0 0 0 0 0 87 95 75 86 98 30 99 7 744 68 11 12 36 94 231 151 c 0 0 0 0 0 0 0 0 149 302 475 169 18 23 12 799 20 17 19 135 612 452 182 198 g 0 0 0 0 0 0 0 0 419 110 166 70 668 740 699 6 18 33 788 19 67 44 240 333 t 0 0 0 0 0 0 0 0 167 315 106 497 38 29 12 10 40 704 4 656 107 232 169 140
positions_7nt_m2_shift8 (positions_7nt_m2)				; positions_7nt_m2 versus positions_7nt_m2; m=1/17; ncol2=16; w=0; offset=0; strand=D; shift=8; score= 1; --------gyctGGGCATGTCyrg ; cor=; Ncor= a 0 0 0 0 0 0 0 0 87 95 75 86 98 30 99 7 744 68 11 12 36 94 231 151 c 0 0 0 0 0 0 0 0 149 302 475 169 18 23 12 799 20 17 19 135 612 452 182 198 g 0 0 0 0 0 0 0 0 419 110 166 70 668 740 699 6 18 33 788 19 67 44 240 333 t 0 0 0 0 0 0 0 0 167 315 106 497 38 29 12 10 40 704 4 656 107 232 169 140
positions_6nt_m1_rc_shift8 (positions_6nt_m1_rc)				; positions_7nt_m2 versus positions_6nt_m1_rc; m=2/17; ncol2=17; w=0; offset=0; strand=R; shift=8; score=0.93908; --------gyctGGGCATGTCyrg ; cor=; Ncor= a 0 0 0 0 0 0 0 0 83 77 66 91 124 36 108 4 730 64 5 13 32 91 283 141 c 0 0 0 0 0 0 0 0 135 297 475 193 21 15 10 778 19 14 17 139 634 430 144 181 g 0 0 0 0 0 0 0 0 417 111 153 67 608 726 658 6 14 19 769 21 48 43 218 337 t 0 0 0 0 0 0 0 0 160 310 101 444 42 18 19 7 32 698 4 622 81 231 150 136
positions_6nt_m2_rc_shift8 (positions_6nt_m2_rc)				; positions_7nt_m2 versus positions_6nt_m2_rc; m=3/17; ncol2=15; w=0; offset=0; strand=R; shift=8; score=0.917578; --------gyctGGGCATGTyyg- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 88 98 79 98 123 21 93 15 773 55 9 13 71 130 207 0 c 0 0 0 0 0 0 0 0 123 296 552 180 12 17 7 809 23 21 18 75 368 310 197 0 g 0 0 0 0 0 0 0 0 454 136 127 68 671 763 725 6 13 36 812 22 111 121 255 0 t 0 0 0 0 0 0 0 0 181 316 88 500 40 45 21 16 37 734 7 736 296 285 187 0
positions_7nt_m1_rc_shift8 (positions_7nt_m1_rc)				; positions_7nt_m2 versus positions_7nt_m1_rc; m=4/17; ncol2=17; w=0; offset=0; strand=R; shift=8; score=0.911572; --------gyctGGGCATGTCtgg ; cor=; Ncor= a 0 0 0 0 0 0 0 0 75 80 73 81 90 33 100 5 650 54 7 9 33 82 109 133 c 0 0 0 0 0 0 0 0 117 231 401 133 13 18 5 695 15 14 13 115 537 142 112 151 g 0 0 0 0 0 0 0 0 365 99 143 53 584 620 592 5 11 35 686 12 70 41 386 303 t 0 0 0 0 0 0 0 0 157 304 97 447 27 43 17 9 38 611 8 578 74 449 107 127
positions_6nt_m3_rc_shift8 (positions_6nt_m3_rc)				; positions_7nt_m2 versus positions_6nt_m3_rc; m=5/17; ncol2=18; w=0; offset=0; strand=R; shift=8; score=0.874031; --------gyctGGGCATGTCygg ; cor=; Ncor= a 0 0 0 0 0 0 0 0 95 97 71 111 137 34 117 5 779 69 9 12 28 103 190 146 c 0 0 0 0 0 0 0 0 159 312 504 196 27 23 10 847 23 19 14 157 714 270 149 160 g 0 0 0 0 0 0 0 0 430 117 175 82 662 769 728 8 17 36 837 19 56 54 399 435 t 0 0 0 0 0 0 0 0 186 344 120 481 44 44 15 10 51 746 10 682 72 443 132 129
oligos_7nt_mkv4_m1_rc_shift5 (oligos_7nt_mkv4_m1_rc)				; positions_7nt_m2 versus oligos_7nt_mkv4_m1_rc; m=6/17; ncol2=19; w=-3; offset=-3; strand=R; shift=5; score=0.817155; -----CwtGyCTGGGCATGTCcms ; cor=; Ncor= a 0 0 0 0 0 60 285 67 29 19 23 36 56 25 106 3 504 58 6 14 31 68 167 98 c 0 0 0 0 0 398 77 39 44 361 496 116 11 8 6 572 23 20 15 126 416 356 157 185 g 0 0 0 0 0 57 64 82 463 34 31 17 500 531 466 4 16 24 557 16 41 31 138 196 t 0 0 0 0 0 70 159 397 49 171 35 416 18 21 7 6 42 483 7 429 97 130 123 106
positions_7nt_m5_rc_shift8 (positions_7nt_m5_rc)				; positions_7nt_m2 versus positions_7nt_m5_rc; m=7/17; ncol2=18; w=0; offset=0; strand=R; shift=8; score=0.808457; --------gyctGGGCATGCCCag ; cor=; Ncor= a 0 0 0 0 0 0 0 0 62 46 57 48 61 22 105 4 449 20 2 6 30 16 302 44 c 0 0 0 0 0 0 0 0 93 212 308 114 14 15 22 489 22 12 8 369 435 412 38 94 g 0 0 0 0 0 0 0 0 265 66 94 38 412 436 370 8 12 22 489 22 15 14 114 308 t 0 0 0 0 0 0 0 0 83 179 44 303 16 30 6 2 20 449 4 106 23 61 49 57
positions_6nt_m4_rc_shift9 (positions_6nt_m4_rc)				; positions_7nt_m2 versus positions_6nt_m4_rc; m=8/17; ncol2=16; w=0; offset=1; strand=R; shift=9; score=0.797936; ---------ycygGACATGTCcrg ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 97 141 121 176 66 547 14 695 31 7 15 32 69 326 139 c 0 0 0 0 0 0 0 0 0 272 302 192 31 20 10 713 7 12 11 173 627 469 105 164 g 0 0 0 0 0 0 0 0 0 98 163 105 469 627 173 11 12 7 714 10 20 31 192 302 t 0 0 0 0 0 0 0 0 0 278 139 327 69 32 15 7 31 695 13 547 66 176 122 140
positions_6nt_m5_shift10 (positions_6nt_m5)				; positions_7nt_m2 versus positions_6nt_m5; m=9/17; ncol2=15; w=0; offset=2; strand=D; shift=10; score=0.794631; ----------cyrGGCATGTCyag ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 91 115 289 25 110 3 676 29 6 15 22 54 305 134 c 0 0 0 0 0 0 0 0 0 0 329 261 37 10 9 720 18 14 8 129 613 441 126 154 g 0 0 0 0 0 0 0 0 0 0 172 87 340 685 598 8 17 14 714 13 36 35 172 316 t 0 0 0 0 0 0 0 0 0 0 142 271 68 14 17 3 23 677 6 577 63 204 131 130
oligos_6nt_mkv3_m3_shift10 (oligos_6nt_mkv3_m3)				; positions_7nt_m2 versus oligos_6nt_mkv3_m3; m=10/17; ncol2=14; w=0; offset=2; strand=D; shift=10; score=0.772536; ----------cyrGACATGTCyrg ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 144 170 237 64 626 9 750 38 5 14 26 105 243 175 c 0 0 0 0 0 0 0 0 0 0 323 259 42 25 8 791 8 19 10 167 700 431 143 172 g 0 0 0 0 0 0 0 0 0 0 173 143 431 700 167 10 19 8 790 8 25 42 260 323 t 0 0 0 0 0 0 0 0 0 0 175 243 105 26 14 5 38 750 10 626 64 237 169 145
positions_7nt_m4_shift10 (positions_7nt_m4)				; positions_7nt_m2 versus positions_7nt_m4; m=11/17; ncol2=15; w=0; offset=2; strand=D; shift=10; score=0.751464; ----------cyrGGCATGTCTgg ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 87 99 288 33 94 7 571 24 9 8 17 45 86 141 c 0 0 0 0 0 0 0 0 0 0 265 237 22 10 7 587 13 14 6 79 507 112 64 84 g 0 0 0 0 0 0 0 0 0 0 146 82 255 553 507 12 7 14 593 7 37 30 372 280 t 0 0 0 0 0 0 0 0 0 0 118 198 51 20 8 10 25 564 8 522 55 429 94 111
oligos_7nt_mkv4_m5_rc_shift11 (oligos_7nt_mkv4_m5_rc)				; positions_7nt_m2 versus oligos_7nt_mkv4_m5_rc; m=12/17; ncol2=12; w=0; offset=3; strand=R; shift=11; score=0.677958; -----------yrGGCAwGTCys- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 111 202 19 50 8 560 355 1 17 8 125 113 0 c 0 0 0 0 0 0 0 0 0 0 0 194 34 14 14 573 12 16 14 45 555 229 178 0 g 0 0 0 0 0 0 0 0 0 0 0 84 272 549 528 11 10 26 577 12 11 43 189 0 t 0 0 0 0 0 0 0 0 0 0 0 208 89 15 5 5 15 200 5 523 23 200 117 0
positions_7nt_m3_shift9 (positions_7nt_m3)				; positions_7nt_m2 versus positions_7nt_m3; m=13/17; ncol2=16; w=0; offset=1; strand=D; shift=9; score=0.66078; ---------yyCAGACATGTCTGr ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 35 58 37 231 15 234 7 289 15 2 6 11 22 38 82 c 0 0 0 0 0 0 0 0 0 120 124 221 11 7 5 306 8 4 1 71 283 52 20 52 g 0 0 0 0 0 0 0 0 0 37 52 20 52 283 71 1 4 8 306 5 7 11 221 124 t 0 0 0 0 0 0 0 0 0 124 82 38 22 11 6 2 15 289 7 234 15 231 37 58
oligos_6nt_mkv3_m1_rc_shift0 (oligos_6nt_mkv3_m1_rc)				; positions_7nt_m2 versus oligos_6nt_mkv3_m1_rc; m=14/17; ncol2=24; w=-8; offset=-8; strand=R; shift=0; score=0.619714; skrGrCATGyCyGGrCATGyCyms ; cor=; Ncor= a 114 112 154 84 329 7 422 44 2 13 20 34 143 35 167 3 490 101 17 26 44 81 168 112 c 156 136 38 25 22 535 28 10 3 358 513 192 13 5 4 563 22 17 9 178 416 304 163 202 g 180 154 315 420 196 11 17 22 565 6 7 16 390 508 387 2 8 20 542 15 22 33 139 149 t 123 171 66 44 26 20 106 497 3 196 33 331 27 25 15 5 53 435 5 354 91 155 103 110
oligos_7nt_mkv4_m4_rc_shift10 (oligos_7nt_mkv4_m4_rc)				; positions_7nt_m2 versus oligos_7nt_mkv4_m4_rc; m=15/17; ncol2=11; w=0; offset=2; strand=R; shift=10; score=0.591927; ----------syGGGCtTGyc--- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 59 83 7 5 17 10 117 7 8 51 83 0 0 0 c 0 0 0 0 0 0 0 0 0 0 222 144 5 16 10 451 23 17 17 127 211 0 0 0 g 0 0 0 0 0 0 0 0 0 0 137 102 461 450 443 11 35 33 447 100 91 0 0 0 t 0 0 0 0 0 0 0 0 0 0 59 148 4 6 7 5 302 420 5 199 92 0 0 0
oligos_7nt_mkv4_m3_shift11 (oligos_7nt_mkv4_m3)				; positions_7nt_m2 versus oligos_7nt_mkv4_m3; m=16/17; ncol2=12; w=0; offset=3; strand=D; shift=11; score=0.580165; -----------yrGACAAGTCyv- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 97 172 26 353 7 433 316 4 8 10 97 119 0 c 0 0 0 0 0 0 0 0 0 0 0 148 38 19 14 429 6 22 1 40 415 182 126 0 g 0 0 0 0 0 0 0 0 0 0 0 75 177 389 79 11 9 8 442 12 7 27 132 0 t 0 0 0 0 0 0 0 0 0 0 0 131 64 17 5 4 3 105 4 391 19 145 74 0
oligos_6nt_mkv3_m2_shift11 (oligos_6nt_mkv3_m2)				; positions_7nt_m2 versus oligos_6nt_mkv3_m2; m=17/17; ncol2=12; w=0; offset=3; strand=D; shift=11; score=0.570154; -----------hrgACAAGTCys- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 146 198 81 397 7 556 404 5 11 18 140 141 0 c 0 0 0 0 0 0 0 0 0 0 0 168 70 59 44 557 11 24 7 16 535 202 157 0 g 0 0 0 0 0 0 0 0 0 0 0 108 209 350 116 12 9 15 560 6 6 54 172 0 t 0 0 0 0 0 0 0 0 0 0 0 159 104 91 24 5 5 138 9 548 22 185 111 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
positions_6nt_m2_shift3 (positions_6nt_m2)				; positions_6nt_m2; m=0 (reference); ncol1=15; shift=3; ncol=18; ---crrACATGCCCagrc ; Alignment reference a 0 0 0 187 285 296 736 7 734 37 16 21 45 40 500 88 316 181 c 0 0 0 255 121 111 22 812 36 13 6 725 763 671 68 127 136 454 g 0 0 0 197 310 368 75 18 21 23 809 7 17 12 180 552 296 123 t 0 0 0 207 130 71 13 9 55 773 15 93 21 123 98 79 98 88
positions_6nt_m2_shift3 (positions_6nt_m2)				; positions_6nt_m2 versus positions_6nt_m2; m=1/18; ncol2=15; w=0; offset=0; strand=D; shift=3; score= 1; ---crrACATGCCCagrc ; cor=; Ncor= a 0 0 0 187 285 296 736 7 734 37 16 21 45 40 500 88 316 181 c 0 0 0 255 121 111 22 812 36 13 6 725 763 671 68 127 136 454 g 0 0 0 197 310 368 75 18 21 23 809 7 17 12 180 552 296 123 t 0 0 0 207 130 71 13 9 55 773 15 93 21 123 98 79 98 88
positions_7nt_m2_rc_shift2 (positions_7nt_m2_rc)				; positions_6nt_m2 versus positions_7nt_m2_rc; m=2/18; ncol2=16; w=-1; offset=-1; strand=R; shift=2; score=0.917578; --cyrGACATGCCCagrc ; cor=; Ncor= a 0 0 140 169 232 107 656 4 704 40 10 12 29 38 497 106 315 167 c 0 0 333 240 44 67 19 788 33 18 6 699 740 668 70 166 110 419 g 0 0 198 182 452 612 135 19 17 20 799 12 23 18 169 475 302 149 t 0 0 151 231 94 36 12 11 68 744 7 99 30 98 86 75 95 87
positions_6nt_m1_shift1 (positions_6nt_m1)				; positions_6nt_m2 versus positions_6nt_m1; m=3/18; ncol2=17; w=-2; offset=-2; strand=D; shift=1; score=0.858211; -ycyrGACATGCCCagrc ; cor=; Ncor= a 0 126 136 150 231 81 622 4 698 32 7 19 18 42 444 101 310 160 c 0 323 337 218 43 48 21 769 19 14 6 658 726 608 67 153 111 417 g 0 91 181 144 430 634 139 17 14 19 778 10 15 21 193 475 297 135 t 0 255 141 283 91 32 13 5 64 730 4 108 36 124 91 66 77 83
positions_7nt_m1_shift1 (positions_7nt_m1)				; positions_6nt_m2 versus positions_7nt_m1; m=4/18; ncol2=17; w=-2; offset=-2; strand=D; shift=1; score=0.849613; -yccaGACATGCCCagrc ; cor=; Ncor= a 0 111 127 107 449 74 578 8 611 38 9 17 43 27 447 97 304 157 c 0 310 303 386 41 70 12 686 35 11 5 592 620 584 53 143 99 365 g 0 80 151 112 142 537 115 13 14 15 695 5 18 13 133 401 231 117 t 0 213 133 109 82 33 9 7 54 650 5 100 33 90 81 73 80 75
positions_6nt_m3_shift0 (positions_6nt_m3)				; positions_6nt_m2 versus positions_6nt_m3; m=5/18; ncol2=18; w=-3; offset=-3; strand=D; shift=0; score=0.806154; gyccrGACATGCCCagrc ; cor=; Ncor= a 92 120 129 132 443 72 682 10 746 51 10 15 44 44 481 120 344 186 c 187 394 435 399 54 56 19 837 36 17 8 728 769 662 82 175 117 430 g 472 91 160 149 270 714 157 14 19 23 847 10 23 27 196 504 312 159 t 119 265 146 190 103 28 12 9 69 779 5 117 34 137 111 71 97 95
oligos_7nt_mkv4_m1_shift2 (oligos_7nt_mkv4_m1)				; positions_6nt_m2 versus oligos_7nt_mkv4_m1; m=6/18; ncol2=19; w=-1; offset=-1; strand=D; shift=2; score=0.75497; --skgGACATGCCCAGrC ; cor=; Ncor= a 0 0 106 123 130 97 429 7 483 42 6 7 21 18 416 35 171 49 c 0 0 196 138 31 41 16 557 24 16 4 466 531 500 17 31 34 463 g 0 0 185 157 356 416 126 15 20 23 572 6 8 11 116 496 361 44 t 0 0 98 167 68 31 14 6 58 504 3 106 25 56 36 23 19 29
positions_6nt_m5_rc_shift1 (positions_6nt_m5_rc)				; positions_6nt_m2 versus positions_6nt_m5_rc; m=7/18; ncol2=15; w=-2; offset=-2; strand=R; shift=1; score=0.712139; -yctrGACATGCCyrg-- ; cor=; Ncor= a 0 92 130 131 204 63 577 6 677 23 3 17 14 68 271 142 0 0 c 0 309 316 172 35 36 13 714 14 17 8 598 685 340 87 172 0 0 g 0 76 154 126 441 613 129 8 14 18 720 9 10 37 261 329 0 0 t 0 257 134 305 54 22 15 6 29 676 3 110 25 289 115 91 0 0
positions_7nt_m5_shift0 (positions_7nt_m5)				; positions_6nt_m2 versus positions_7nt_m5; m=8/18; ncol2=18; w=-3; offset=-3; strand=D; shift=0; score=0.709059; gyctGGGCATGCCCagrc ; cor=; Ncor= a 62 46 57 49 61 23 106 4 449 20 2 6 30 16 303 44 179 83 c 94 212 308 114 14 15 22 489 22 12 8 370 436 412 38 94 66 265 g 264 66 94 38 412 435 369 8 12 22 489 22 15 14 114 308 212 93 t 83 179 44 302 16 30 6 2 20 449 4 105 22 61 48 57 46 62
positions_6nt_m4_shift1 (positions_6nt_m4)				; positions_6nt_m2 versus positions_6nt_m4; m=9/18; ncol2=16; w=-2; offset=-2; strand=D; shift=1; score=0.708081; -ycygGACATGTCcrgr- ; cor=; Ncor= a 0 97 140 122 176 66 547 13 695 31 7 15 32 69 327 139 278 0 c 0 272 302 192 31 20 10 714 7 12 11 173 627 469 105 163 98 0 g 0 98 164 105 469 627 173 11 12 7 713 10 20 31 192 302 272 0 t 0 278 139 326 69 32 15 7 31 695 14 547 66 176 121 141 97 0
oligos_7nt_mkv4_m5_shift3 (oligos_7nt_mkv4_m5)				; positions_6nt_m2 versus oligos_7nt_mkv4_m5; m=10/18; ncol2=12; w=0; offset=0; strand=D; shift=3; score=0.698841; ---srGACwTGCCyr--- ; cor=; Ncor= a 0 0 0 117 200 23 523 5 200 15 5 5 15 89 208 0 0 0 c 0 0 0 189 43 11 12 577 26 10 11 528 549 272 84 0 0 0 g 0 0 0 178 229 555 45 14 16 12 573 14 14 34 194 0 0 0 t 0 0 0 113 125 8 17 1 355 560 8 50 19 202 111 0 0 0
positions_7nt_m4_rc_shift1 (positions_7nt_m4_rc)				; positions_6nt_m2 versus positions_7nt_m4_rc; m=11/18; ncol2=15; w=-2; offset=-2; strand=R; shift=1; score=0.691873; -yccAGACATGCCyrg-- ; cor=; Ncor= a 0 74 111 94 429 55 522 8 564 25 10 8 20 51 198 118 0 0 c 0 296 280 372 30 37 7 593 14 7 12 507 553 255 82 146 0 0 g 0 55 84 64 112 507 79 6 14 13 587 7 10 22 237 265 0 0 t 0 191 141 86 45 17 8 9 24 571 7 94 33 288 99 87 0 0
oligos_6nt_mkv3_m3_shift2 (oligos_6nt_mkv3_m3)				; positions_6nt_m2 versus oligos_6nt_mkv3_m3; m=12/18; ncol2=14; w=-1; offset=-1; strand=D; shift=2; score=0.685257; --cyrGACATGTCyrg-- ; cor=; Ncor= a 0 0 144 170 237 64 626 9 750 38 5 14 26 105 243 175 0 0 c 0 0 323 259 42 25 8 791 8 19 10 167 700 431 143 172 0 0 g 0 0 173 143 431 700 167 10 19 8 790 8 25 42 260 323 0 0 t 0 0 175 243 105 26 14 5 38 750 10 626 64 237 169 145 0 0
oligos_7nt_mkv4_m4_shift5 (oligos_7nt_mkv4_m4)				; positions_6nt_m2 versus oligos_7nt_mkv4_m4; m=13/18; ncol2=11; w=0; offset=2; strand=D; shift=5; score=0.626362; -----grCAaGCCCrs-- ; cor=; Ncor= a 0 0 0 0 0 92 199 5 420 302 5 7 6 4 148 59 0 0 c 0 0 0 0 0 91 100 447 33 35 11 443 450 461 102 137 0 0 g 0 0 0 0 0 211 127 17 17 23 451 10 16 5 144 222 0 0 t 0 0 0 0 0 83 51 8 7 117 10 17 5 7 83 59 0 0
positions_7nt_m3_shift1 (positions_7nt_m3)				; positions_6nt_m2 versus positions_7nt_m3; m=14/18; ncol2=16; w=-2; offset=-2; strand=D; shift=1; score=0.601262; -yyCAGACATGTCTGrr- ; cor=; Ncor= a 0 35 58 37 231 15 234 7 289 15 2 6 11 22 38 82 124 0 c 0 120 124 221 11 7 5 306 8 4 1 71 283 52 20 52 37 0 g 0 37 52 20 52 283 71 1 4 8 306 5 7 11 221 124 120 0 t 0 124 82 38 22 11 6 2 15 289 7 234 15 231 37 58 35 0
oligos_7nt_mkv4_m3_rc_shift3 (oligos_7nt_mkv4_m3_rc)				; positions_6nt_m2 versus oligos_7nt_mkv4_m3_rc; m=15/18; ncol2=12; w=0; offset=0; strand=R; shift=3; score=0.587531; ---brGACTTGTCyr--- ; cor=; Ncor= a 0 0 0 74 145 19 391 4 105 3 4 5 17 64 131 0 0 0 c 0 0 0 132 27 7 12 442 8 9 11 79 389 177 75 0 0 0 g 0 0 0 126 182 415 40 1 22 6 429 14 19 38 148 0 0 0 t 0 0 0 119 97 10 8 4 316 433 7 353 26 172 97 0 0 0
oligos_6nt_mkv3_m2_rc_shift3 (oligos_6nt_mkv3_m2_rc)				; positions_6nt_m2 versus oligos_6nt_mkv3_m2_rc; m=16/18; ncol2=12; w=0; offset=0; strand=R; shift=3; score=0.578619; ---srGACTTGTcyd--- ; cor=; Ncor= a 0 0 0 111 185 22 548 9 138 5 5 24 91 104 159 0 0 0 c 0 0 0 172 54 6 6 560 15 9 12 116 350 209 108 0 0 0 g 0 0 0 157 202 535 16 7 24 11 557 44 59 70 168 0 0 0 t 0 0 0 141 140 18 11 5 404 556 7 397 81 198 146 0 0 0
oligos_6nt_mkv3_m1_shift2 (oligos_6nt_mkv3_m1)				; positions_6nt_m2 versus oligos_6nt_mkv3_m1; m=17/18; ncol2=24; w=-1; offset=-1; strand=D; shift=2; score=0.573897; --skrGrCATGyCCrGrC ; cor=; Ncor= a 0 0 110 103 155 91 354 5 435 53 5 15 25 27 331 33 196 3 c 0 0 149 139 33 22 15 542 20 8 2 387 508 390 16 7 6 565 g 0 0 202 163 304 416 178 9 17 22 563 4 5 13 192 513 358 3 t 0 0 112 168 81 44 26 17 101 490 3 167 35 143 34 20 13 2
oligos_7nt_mkv4_m2_shift9 (oligos_7nt_mkv4_m2)				; positions_6nt_m2 versus oligos_7nt_mkv4_m2; m=18/18; ncol2=12; w=0; offset=6; strand=D; shift=9; score=0.426894; ---------tgCCCAGAC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 115 78 22 24 13 580 21 494 21 c 0 0 0 0 0 0 0 0 0 108 128 556 594 620 9 21 32 586 g 0 0 0 0 0 0 0 0 0 99 362 23 6 1 19 595 106 30 t 0 0 0 0 0 0 0 0 0 327 81 48 25 15 41 12 17 12

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_mkv4_m2_shift7 (oligos_7nt_mkv4_m2)				; oligos_7nt_mkv4_m2; m=0 (reference); ncol1=12; shift=7; ncol=19; -------tgCCCAGACAtg ; Alignment reference a 0 0 0 0 0 0 0 115 78 22 24 13 580 21 494 21 602 145 125 c 0 0 0 0 0 0 0 108 128 556 594 620 9 21 32 586 17 125 80 g 0 0 0 0 0 0 0 99 362 23 6 1 19 595 106 30 7 127 366 t 0 0 0 0 0 0 0 327 81 48 25 15 41 12 17 12 23 252 78
oligos_7nt_mkv4_m2_shift7 (oligos_7nt_mkv4_m2)				; oligos_7nt_mkv4_m2 versus oligos_7nt_mkv4_m2; m=1/8; ncol2=12; w=0; offset=0; strand=D; shift=7; score= 1; -------tgCCCAGACAtg ; cor=; Ncor= a 0 0 0 0 0 0 0 115 78 22 24 13 580 21 494 21 602 145 125 c 0 0 0 0 0 0 0 108 128 556 594 620 9 21 32 586 17 125 80 g 0 0 0 0 0 0 0 99 362 23 6 1 19 595 106 30 7 127 366 t 0 0 0 0 0 0 0 327 81 48 25 15 41 12 17 12 23 252 78
oligos_7nt_mkv4_m1_shift0 (oligos_7nt_mkv4_m1)				; oligos_7nt_mkv4_m2 versus oligos_7nt_mkv4_m1; m=2/8; ncol2=19; w=-7; offset=-7; strand=D; shift=0; score=0.559598; skgGACATGCCCAGrCawG ; cor=; Ncor= a 106 123 130 97 429 7 483 42 6 7 21 18 416 35 171 49 397 159 70 c 196 138 31 41 16 557 24 16 4 466 531 500 17 31 34 463 82 64 57 g 185 157 356 416 126 15 20 23 572 6 8 11 116 496 361 44 39 77 398 t 98 167 68 31 14 6 58 504 3 106 25 56 36 23 19 29 67 285 60
positions_7nt_m4_rc_shift9 (positions_7nt_m4_rc)				; oligos_7nt_mkv4_m2 versus positions_7nt_m4_rc; m=3/8; ncol2=15; w=0; offset=2; strand=R; shift=9; score=0.498004; ---------yccAGACATG ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 74 111 94 429 55 522 8 564 25 10 c 0 0 0 0 0 0 0 0 0 296 280 372 30 37 7 593 14 7 12 g 0 0 0 0 0 0 0 0 0 55 84 64 112 507 79 6 14 13 587 t 0 0 0 0 0 0 0 0 0 191 141 86 45 17 8 9 24 571 7
positions_6nt_m3_shift8 (positions_6nt_m3)				; oligos_7nt_mkv4_m2 versus positions_6nt_m3; m=4/8; ncol2=18; w=0; offset=1; strand=D; shift=8; score=0.470932; --------gyccrGACATG ; cor=; Ncor= a 0 0 0 0 0 0 0 0 92 120 129 132 443 72 682 10 746 51 10 c 0 0 0 0 0 0 0 0 187 394 435 399 54 56 19 837 36 17 8 g 0 0 0 0 0 0 0 0 472 91 160 149 270 714 157 14 19 23 847 t 0 0 0 0 0 0 0 0 119 265 146 190 103 28 12 9 69 779 5
positions_7nt_m3_shift9 (positions_7nt_m3)				; oligos_7nt_mkv4_m2 versus positions_7nt_m3; m=5/8; ncol2=16; w=0; offset=2; strand=D; shift=9; score=0.464237; ---------yyCAGACATG ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 35 58 37 231 15 234 7 289 15 2 c 0 0 0 0 0 0 0 0 0 120 124 221 11 7 5 306 8 4 1 g 0 0 0 0 0 0 0 0 0 37 52 20 52 283 71 1 4 8 306 t 0 0 0 0 0 0 0 0 0 124 82 38 22 11 6 2 15 289 7
positions_7nt_m1_shift9 (positions_7nt_m1)				; oligos_7nt_mkv4_m2 versus positions_7nt_m1; m=6/8; ncol2=17; w=0; offset=2; strand=D; shift=9; score=0.430169; ---------yccaGACATG ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 111 127 107 449 74 578 8 611 38 9 c 0 0 0 0 0 0 0 0 0 310 303 386 41 70 12 686 35 11 5 g 0 0 0 0 0 0 0 0 0 80 151 112 142 537 115 13 14 15 695 t 0 0 0 0 0 0 0 0 0 213 133 109 82 33 9 7 54 650 5
positions_6nt_m2_shift1 (positions_6nt_m2)				; oligos_7nt_mkv4_m2 versus positions_6nt_m2; m=7/8; ncol2=15; w=-6; offset=-6; strand=D; shift=1; score=0.426894; -crrACATGCCCagrc--- ; cor=; Ncor= a 0 187 285 296 736 7 734 37 16 21 45 40 500 88 316 181 0 0 0 c 0 255 121 111 22 812 36 13 6 725 763 671 68 127 136 454 0 0 0 g 0 197 310 368 75 18 21 23 809 7 17 12 180 552 296 123 0 0 0 t 0 207 130 71 13 9 55 773 15 93 21 123 98 79 98 88 0 0 0
oligos_6nt_mkv3_m1_shift0 (oligos_6nt_mkv3_m1)				; oligos_7nt_mkv4_m2 versus oligos_6nt_mkv3_m1; m=8/8; ncol2=24; w=-7; offset=-7; strand=D; shift=0; score=0.424649; skrGrCATGyCCrGrCATG ; cor=; Ncor= a 110 103 155 91 354 5 435 53 5 15 25 27 331 33 196 3 497 106 20 c 149 139 33 22 15 542 20 8 2 387 508 390 16 7 6 565 22 17 11 g 202 163 304 416 178 9 17 22 563 4 5 13 192 513 358 3 10 28 535 t 112 168 81 44 26 17 101 490 3 167 35 143 34 20 13 2 44 422 7

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_mkv4_m4_shift5 (oligos_7nt_mkv4_m4)				; oligos_7nt_mkv4_m4; m=0 (reference); ncol1=11; shift=5; ncol=16; -----grCAaGCCCrs ; Alignment reference a 0 0 0 0 0 92 199 5 420 302 5 7 6 4 148 59 c 0 0 0 0 0 91 100 447 33 35 11 443 450 461 102 137 g 0 0 0 0 0 211 127 17 17 23 451 10 16 5 144 222 t 0 0 0 0 0 83 51 8 7 117 10 17 5 7 83 59
oligos_7nt_mkv4_m4_shift5 (oligos_7nt_mkv4_m4)				; oligos_7nt_mkv4_m4 versus oligos_7nt_mkv4_m4; m=1/15; ncol2=11; w=0; offset=0; strand=D; shift=5; score= 1; -----grCAaGCCCrs ; cor=; Ncor= a 0 0 0 0 0 92 199 5 420 302 5 7 6 4 148 59 c 0 0 0 0 0 91 100 447 33 35 11 443 450 461 102 137 g 0 0 0 0 0 211 127 17 17 23 451 10 16 5 144 222 t 0 0 0 0 0 83 51 8 7 117 10 17 5 7 83 59
positions_6nt_m2_shift3 (positions_6nt_m2)				; oligos_7nt_mkv4_m4 versus positions_6nt_m2; m=2/15; ncol2=15; w=-2; offset=-2; strand=D; shift=3; score=0.626362; ---crrACATGCCCag ; cor=; Ncor= a 0 0 0 187 285 296 736 7 734 37 16 21 45 40 500 88 c 0 0 0 255 121 111 22 812 36 13 6 725 763 671 68 127 g 0 0 0 197 310 368 75 18 21 23 809 7 17 12 180 552 t 0 0 0 207 130 71 13 9 55 773 15 93 21 123 98 79
positions_6nt_m5_rc_shift1 (positions_6nt_m5_rc)				; oligos_7nt_mkv4_m4 versus positions_6nt_m5_rc; m=3/15; ncol2=15; w=-4; offset=-4; strand=R; shift=1; score=0.59655; -yctrGACATGCCyrg ; cor=; Ncor= a 0 92 130 131 204 63 577 6 677 23 3 17 14 68 271 142 c 0 309 316 172 35 36 13 714 14 17 8 598 685 340 87 172 g 0 76 154 126 441 613 129 8 14 18 720 9 10 37 261 329 t 0 257 134 305 54 22 15 6 29 676 3 110 25 289 115 91
positions_7nt_m2_rc_shift2 (positions_7nt_m2_rc)				; oligos_7nt_mkv4_m4 versus positions_7nt_m2_rc; m=4/15; ncol2=16; w=-3; offset=-3; strand=R; shift=2; score=0.591927; --cyrGACATGCCCag ; cor=; Ncor= a 0 0 140 169 232 107 656 4 704 40 10 12 29 38 497 106 c 0 0 333 240 44 67 19 788 33 18 6 699 740 668 70 166 g 0 0 198 182 452 612 135 19 17 20 799 12 23 18 169 475 t 0 0 151 231 94 36 12 11 68 744 7 99 30 98 86 75
positions_7nt_m4_rc_shift1 (positions_7nt_m4_rc)				; oligos_7nt_mkv4_m4 versus positions_7nt_m4_rc; m=5/15; ncol2=15; w=-4; offset=-4; strand=R; shift=1; score=0.582337; -yccAGACATGCCyrg ; cor=; Ncor= a 0 74 111 94 429 55 522 8 564 25 10 8 20 51 198 118 c 0 296 280 372 30 37 7 593 14 7 12 507 553 255 82 146 g 0 55 84 64 112 507 79 6 14 13 587 7 10 22 237 265 t 0 191 141 86 45 17 8 9 24 571 7 94 33 288 99 87
oligos_7nt_mkv4_m3_shift3 (oligos_7nt_mkv4_m3)				; oligos_7nt_mkv4_m4 versus oligos_7nt_mkv4_m3; m=6/15; ncol2=12; w=-2; offset=-2; strand=D; shift=3; score=0.561598; ---yrGACAAGTCyv- ; cor=; Ncor= a 0 0 0 97 172 26 353 7 433 316 4 8 10 97 119 0 c 0 0 0 148 38 19 14 429 6 22 1 40 415 182 126 0 g 0 0 0 75 177 389 79 11 9 8 442 12 7 27 132 0 t 0 0 0 131 64 17 5 4 3 105 4 391 19 145 74 0
positions_7nt_m1_shift1 (positions_7nt_m1)				; oligos_7nt_mkv4_m4 versus positions_7nt_m1; m=7/15; ncol2=17; w=-4; offset=-4; strand=D; shift=1; score=0.553285; -yccaGACATGCCCag ; cor=; Ncor= a 0 111 127 107 449 74 578 8 611 38 9 17 43 27 447 97 c 0 310 303 386 41 70 12 686 35 11 5 592 620 584 53 143 g 0 80 151 112 142 537 115 13 14 15 695 5 18 13 133 401 t 0 213 133 109 82 33 9 7 54 650 5 100 33 90 81 73
positions_6nt_m1_shift1 (positions_6nt_m1)				; oligos_7nt_mkv4_m4 versus positions_6nt_m1; m=8/15; ncol2=17; w=-4; offset=-4; strand=D; shift=1; score=0.553022; -ycyrGACATGCCCag ; cor=; Ncor= a 0 126 136 150 231 81 622 4 698 32 7 19 18 42 444 101 c 0 323 337 218 43 48 21 769 19 14 6 658 726 608 67 153 g 0 91 181 144 430 634 139 17 14 19 778 10 15 21 193 475 t 0 255 141 283 91 32 13 5 64 730 4 108 36 124 91 66
oligos_6nt_mkv3_m3_rc_shift2 (oligos_6nt_mkv3_m3_rc)				; oligos_7nt_mkv4_m4 versus oligos_6nt_mkv3_m3_rc; m=9/15; ncol2=14; w=-3; offset=-3; strand=R; shift=2; score=0.550571; --cyrGACATGTCyrg ; cor=; Ncor= a 0 0 145 169 237 64 626 10 750 38 5 14 26 105 243 175 c 0 0 323 260 42 25 8 790 8 19 10 167 700 431 143 173 g 0 0 172 143 431 700 167 10 19 8 791 8 25 42 259 323 t 0 0 175 243 105 26 14 5 38 750 9 626 64 237 170 144
oligos_7nt_mkv4_m5_shift3 (oligos_7nt_mkv4_m5)				; oligos_7nt_mkv4_m4 versus oligos_7nt_mkv4_m5; m=10/15; ncol2=12; w=-2; offset=-2; strand=D; shift=3; score=0.549349; ---srGACwTGCCyr- ; cor=; Ncor= a 0 0 0 117 200 23 523 5 200 15 5 5 15 89 208 0 c 0 0 0 189 43 11 12 577 26 10 11 528 549 272 84 0 g 0 0 0 178 229 555 45 14 16 12 573 14 14 34 194 0 t 0 0 0 113 125 8 17 1 355 560 8 50 19 202 111 0
oligos_6nt_mkv3_m2_shift3 (oligos_6nt_mkv3_m2)				; oligos_7nt_mkv4_m4 versus oligos_6nt_mkv3_m2; m=11/15; ncol2=12; w=-2; offset=-2; strand=D; shift=3; score=0.547905; ---hrgACAAGTCys- ; cor=; Ncor= a 0 0 0 146 198 81 397 7 556 404 5 11 18 140 141 0 c 0 0 0 168 70 59 44 557 11 24 7 16 535 202 157 0 g 0 0 0 108 209 350 116 12 9 15 560 6 6 54 172 0 t 0 0 0 159 104 91 24 5 5 138 9 548 22 185 111 0
positions_6nt_m3_shift0 (positions_6nt_m3)				; oligos_7nt_mkv4_m4 versus positions_6nt_m3; m=12/15; ncol2=18; w=-5; offset=-5; strand=D; shift=0; score=0.522932; gyccrGACATGCCCag ; cor=; Ncor= a 92 120 129 132 443 72 682 10 746 51 10 15 44 44 481 120 c 187 394 435 399 54 56 19 837 36 17 8 728 769 662 82 175 g 472 91 160 149 270 714 157 14 19 23 847 10 23 27 196 504 t 119 265 146 190 103 28 12 9 69 779 5 117 34 137 111 71
positions_7nt_m5_shift0 (positions_7nt_m5)				; oligos_7nt_mkv4_m4 versus positions_7nt_m5; m=13/15; ncol2=18; w=-5; offset=-5; strand=D; shift=0; score=0.507732; gyctGGGCATGCCCag ; cor=; Ncor= a 62 46 57 49 61 23 106 4 449 20 2 6 30 16 303 44 c 94 212 308 114 14 15 22 489 22 12 8 370 436 412 38 94 g 264 66 94 38 412 435 369 8 12 22 489 22 15 14 114 308 t 83 179 44 302 16 30 6 2 20 449 4 105 22 61 48 57
positions_6nt_m4_rc_shift1 (positions_6nt_m4_rc)				; oligos_7nt_mkv4_m4 versus positions_6nt_m4_rc; m=14/15; ncol2=16; w=-4; offset=-4; strand=R; shift=1; score=0.497501; -ycygGACATGTCcrg ; cor=; Ncor= a 0 97 141 121 176 66 547 14 695 31 7 15 32 69 326 139 c 0 272 302 192 31 20 10 713 7 12 11 173 627 469 105 164 g 0 98 163 105 469 627 173 11 12 7 714 10 20 31 192 302 t 0 278 139 327 69 32 15 7 31 695 13 547 66 176 122 140
oligos_7nt_mkv4_m1_shift2 (oligos_7nt_mkv4_m1)				; oligos_7nt_mkv4_m4 versus oligos_7nt_mkv4_m1; m=15/15; ncol2=19; w=-3; offset=-3; strand=D; shift=2; score=0.492441; --skgGACATGCCCAG ; cor=; Ncor= a 0 0 106 123 130 97 429 7 483 42 6 7 21 18 416 35 c 0 0 196 138 31 41 16 557 24 16 4 466 531 500 17 31 g 0 0 185 157 356 416 126 15 20 23 572 6 8 11 116 496 t 0 0 98 167 68 31 14 6 58 504 3 106 25 56 36 23